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fix(store/v2): fix the pebbledb storage implementation #21837

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@cool-develope cool-develope commented Sep 20, 2024

Description

Closes: #21642

While debugging it, found two following issues.

  • fix earliestVersion from 1 initially to 0
  • fix the initial iterator to reflect the tombstones

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  • included the necessary unit and integration tests
  • added a changelog entry to CHANGELOG.md
  • updated the relevant documentation or specification, including comments for documenting Go code
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Summary by CodeRabbit

  • New Features

    • Enhanced database functions to retrieve the earliest version, improving data integrity.
    • Improved iterator behavior to skip tombstoned entries, ensuring accurate data iteration.
  • Bug Fixes

    • Added a test to verify the correct behavior of the database iterator when a key is deleted, ensuring reliable deletion functionality.

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coderabbitai bot commented Sep 20, 2024

Walkthrough

Walkthrough

The changes in this pull request primarily focus on modifying the functionality of the New and NewWithDB functions in the pebbledb storage module. The retrieval of the prune height is replaced with the retrieval of the earliest version from the database. Additionally, an enhancement is made to the iterator behavior to skip tombstoned entries, and a new test is introduced to validate the deletion behavior of the database iterator.

Changes

Files Change Summary
store/v2/storage/pebbledb/db.go Updated New and NewWithDB functions to retrieve the earliest version instead of the prune height. Replaced getPruneHeight with getEarliestVersion, which calculates the earliest version based on the prune height plus one.
store/v2/storage/pebbledb/iterator.go Modified newPebbleDBIterator to skip tombstoned key/value pairs after positioning the cursor using SeekLT.
store/v2/storage/storage_test_suite.go Added TestDatabaseIterator_WithDelete to test the behavior of the database iterator when a key is deleted, ensuring correct entry counts before and after deletion.

Assessment against linked issues

Objective Addressed Explanation
Ensure the database can handle genesis state initialization without hanging (#21642)
Improve error handling related to database operations (#21642) Changes do not directly address error handling issues.

Possibly related PRs

Suggested labels

C:server/v2, C:server/v2 stf

Suggested reviewers

  • kocubinski
  • tac0turtle

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@cool-develope your pull request is missing a changelog!

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Actionable comments posted: 1

Review details

Configuration used: .coderabbit.yml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 763e4d6 and 190a98c.

Files selected for processing (3)
  • store/v2/storage/pebbledb/db.go (3 hunks)
  • store/v2/storage/pebbledb/iterator.go (1 hunks)
  • store/v2/storage/storage_test_suite.go (1 hunks)
Additional context used
Path-based instructions (3)
store/v2/storage/pebbledb/db.go (1)

Pattern **/*.go: Review the Golang code for conformity with the Uber Golang style guide, highlighting any deviations.

store/v2/storage/pebbledb/iterator.go (1)

Pattern **/*.go: Review the Golang code for conformity with the Uber Golang style guide, highlighting any deviations.

store/v2/storage/storage_test_suite.go (1)

Pattern **/*.go: Review the Golang code for conformity with the Uber Golang style guide, highlighting any deviations.

Additional comments not posted (6)
store/v2/storage/pebbledb/iterator.go (1)

85-90: LGTM! The added check improves the iterator's behavior by skipping tombstoned entries.

The new condition itr.valid && itr.cursorTombstoned() ensures that if the iterator is valid but currently pointing to a tombstoned key/value pair, it advances to the next non-tombstoned entry using itr.Next().

This enhancement prevents the iterator from remaining stuck on deleted entries, thereby improving the integrity of the data being iterated over.

store/v2/storage/storage_test_suite.go (1)

488-513: LGTM!

The test function is well-structured and covers the expected behavior of the database iterator when a key is deleted. It follows the AAA pattern and uses helper functions to improve readability. The test naming is also consistent with the convention.

store/v2/storage/pebbledb/db.go (4)

71-73: Update to use getEarliestVersion function is appropriate

The change to retrieve the earliest version using getEarliestVersion(db) improves the initialization logic by accurately reflecting the earliest version available in the database.


78-78: Properly initializing earliestVersion field

Setting the earliestVersion during database initialization ensures correct tracking of the earliest version and helps prevent potential inconsistencies.


84-86: Consistent retrieval of earliestVersion in NewWithDB

The update to retrieve earliestVersion in the NewWithDB function and handling errors appropriately maintains consistency with the New function.

Also applies to: 91-91


383-383: Confirm the logic of incrementing pruneHeight by 1

In getEarliestVersion, adding 1 to binary.LittleEndian.Uint64(bz) calculates the earliestVersion based on pruneHeight + 1. Please verify that this logic aligns with the expected behavior, especially in scenarios where the pruneHeight is unset or zero, to avoid off-by-one errors.

Comment on lines +365 to +368
// getEarliestVersion returns the earliest version set in the database.
// It is calculated by prune height + 1. If the prune height is not set, it
// returns 0.
func getEarliestVersion(storage *pebble.DB) (uint64, error) {
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Refine the documentation comment for getEarliestVersion

The documentation comment can be improved to adhere to Go's documentation conventions:

  • Start with the function name.
  • Use complete sentences.
  • Enclose variable names in backticks for clarity.

Apply this diff to enhance the comment:

-// getEarliestVersion returns the earliest version set in the database.
-// It is calculated by prune height + 1. If the prune height is not set, it
-// returns 0.
+// getEarliestVersion returns the earliest version set in the database.
+// It is calculated by adding 1 to the `pruneHeight`. If the `pruneHeight` is not set, it returns 0.
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.

Suggested change
// getEarliestVersion returns the earliest version set in the database.
// It is calculated by prune height + 1. If the prune height is not set, it
// returns 0.
func getEarliestVersion(storage *pebble.DB) (uint64, error) {
// getEarliestVersion returns the earliest version set in the database.
// It is calculated by adding 1 to the `pruneHeight`. If the `pruneHeight` is not set, it returns 0.
func getEarliestVersion(storage *pebble.DB) (uint64, error) {

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tACK

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sonarcloud bot commented Sep 21, 2024

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[Bug]: pebbledb SS backend hangs at init genesis
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