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nlpie / biomedicus

BioMedICUS: A biomedical and clinical NLP engine.
https://nlpie.github.io/biomedicus/
Apache License 2.0
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Bump org.rocksdb:rocksdbjni from 9.4.0 to 9.6.1 in /java #399

Closed dependabot[bot] closed 1 month ago

dependabot[bot] commented 2 months ago

Bumps org.rocksdb:rocksdbjni from 9.4.0 to 9.6.1.

Release notes

Sourced from org.rocksdb:rocksdbjni's releases.

RocksDB 9.6.1

9.6.1 (2024-08-24)

Bug Fixes

  • Fix correctness of MultiGet across column families with user timestamp.

9.6.0 (2024-08-19)

New Features

  • *Best efforts recovery supports recovering to incomplete Version with a clean seqno cut that presents a valid point in time view from the user's perspective, if versioning history doesn't include atomic flush.
  • New option BlockBasedTableOptions::decouple_partitioned_filters should improve efficiency in serving read queries because filter and index partitions can consistently target the configured metadata_block_size. This option is currently opt-in.
  • Introduce a new mutable CF option paranoid_memory_checks. It enables additional validation on data integrity during reads/scanning. Currently, skip list based memtable will validate key ordering during look up and scans.

Public API Changes

  • Add ticker stats to count file read retries due to checksum mismatch
  • Adds optional installation callback function for remote compaction

Behavior Changes

  • There may be less intra-L0 compaction triggered by total L0 size being too small. We now use compensated file size (tombstones are assigned some value size) when calculating L0 size and reduce the threshold for L0 size limit. This is to avoid accumulating too much data/tombstones in L0.

Bug Fixes

  • *Make DestroyDB supports slow deletion when it's configured in SstFileManager. The slow deletion is subject to the configured rate_bytes_per_sec, but not subject to the max_trash_db_ratio.
  • Fixed a bug where we set unprep_seqs_ even when WriteImpl() fails. This was caught by stress test write fault injection in WriteImpl(). This may have incorrectly caused iteration creation failure for unvalidated writes or returned wrong result for WriteUnpreparedTxn::GetUnpreparedSequenceNumbers().
  • Fixed a bug where successful write right after error recovery for last failed write finishes causes duplicate WAL entries
  • Fixed a data race involving the background error status in unordered_write mode.
  • *Fix a bug where file snapshot functions like backup, checkpoint may attempt to copy a non-existing manifest file. #12882
  • Fix a bug where per kv checksum corruption may be ignored in MultiGet().
  • Fix a race condition in pessimistic transactions that could allow multiple transactions with the same name to be registered simultaneously, resulting in a crash or other unpredictable behavior.

RocksDB 9.5.2

9.5.2 (2024-08-13)

Bug Fixes

  • Fix a race condition in pessimistic transactions that could allow multiple transactions with the same name to be registered simultaneously, resulting in a crash or other unpredictable behavior.

Public API Changes

  • Add ticker stats to count file read retries due to checksum mismatch

9.5.1 (2024-08-02)

Bug Fixes

  • *Make DestroyDB supports slow deletion when it's configured in SstFileManager. The slow deletion is subject to the configured rate_bytes_per_sec, but not subject to the max_trash_db_ratio.

9.5.0 (2024-07-19)

Public API Changes

  • Introduced new C API function rocksdb_writebatch_iterate_cf for column family-aware iteration over the contents of a WriteBatch
  • Add support to ingest SST files generated by a DB instead of SstFileWriter. This can be enabled with experimental option IngestExternalFileOptions::allow_db_generated_files.

Behavior Changes

  • When calculating total log size for the log_size_for_flush argument in CreateCheckpoint API, the size of the archived log will not be included to avoid unnecessary flush

Bug Fixes

  • Fix a major bug in which an iterator using prefix filtering and SeekForPrev might miss data when the DB is using whole_key_filtering=false and partition_filters=true.
  • Fixed a bug where OnErrorRecoveryBegin() is not called before auto recovery starts.

... (truncated)

Changelog

Sourced from org.rocksdb:rocksdbjni's changelog.

9.6.1 (08/24/2024)

Bug Fixes

  • Fix correctness of MultiGet across column families with user timestamp.

9.6.0 (08/19/2024)

New Features

  • *Best efforts recovery supports recovering to incomplete Version with a clean seqno cut that presents a valid point in time view from the user's perspective, if versioning history doesn't include atomic flush.
  • New option BlockBasedTableOptions::decouple_partitioned_filters should improve efficiency in serving read queries because filter and index partitions can consistently target the configured metadata_block_size. This option is currently opt-in.
  • Introduce a new mutable CF option paranoid_memory_checks. It enables additional validation on data integrity during reads/scanning. Currently, skip list based memtable will validate key ordering during look up and scans.

Public API Changes

  • Add ticker stats to count file read retries due to checksum mismatch
  • Adds optional installation callback function for remote compaction

Behavior Changes

  • There may be less intra-L0 compaction triggered by total L0 size being too small. We now use compensated file size (tombstones are assigned some value size) when calculating L0 size and reduce the threshold for L0 size limit. This is to avoid accumulating too much data/tombstones in L0.

Bug Fixes

  • *Make DestroyDB supports slow deletion when it's configured in SstFileManager. The slow deletion is subject to the configured rate_bytes_per_sec, but not subject to the max_trash_db_ratio.
  • Fixed a bug where we set unprep_seqs_ even when WriteImpl() fails. This was caught by stress test write fault injection in WriteImpl(). This may have incorrectly caused iteration creation failure for unvalidated writes or returned wrong result for WriteUnpreparedTxn::GetUnpreparedSequenceNumbers().
  • Fixed a bug where successful write right after error recovery for last failed write finishes causes duplicate WAL entries
  • Fixed a data race involving the background error status in unordered_write mode.
  • *Fix a bug where file snapshot functions like backup, checkpoint may attempt to copy a non-existing manifest file. #12882
  • Fix a bug where per kv checksum corruption may be ignored in MultiGet().
  • Fix a race condition in pessimistic transactions that could allow multiple transactions with the same name to be registered simultaneously, resulting in a crash or other unpredictable behavior.

9.5.0 (07/19/2024)

Public API Changes

  • Introduced new C API function rocksdb_writebatch_iterate_cf for column family-aware iteration over the contents of a WriteBatch
  • Add support to ingest SST files generated by a DB instead of SstFileWriter. This can be enabled with experimental option IngestExternalFileOptions::allow_db_generated_files.

Behavior Changes

  • When calculating total log size for the log_size_for_flush argument in CreateCheckpoint API, the size of the archived log will not be included to avoid unnecessary flush

Bug Fixes

  • Fix a major bug in which an iterator using prefix filtering and SeekForPrev might miss data when the DB is using whole_key_filtering=false and partition_filters=true.
  • Fixed a bug where OnErrorRecoveryBegin() is not called before auto recovery starts.
  • Fixed a bug where event listener reads ErrorHandler's bg_error_ member without holding db mutex(#12803).
  • Fixed a bug in handling MANIFEST write error that caused the latest valid MANIFEST file to get deleted, resulting in the DB being unopenable.
  • Fixed a race between error recovery due to manifest sync or write failure and external SST file ingestion. Both attempt to write a new manifest file, which causes an assertion failure.

Performance Improvements

  • Fix an issue where compactions were opening table files and reading table properties while holding db mutex_.
  • Reduce unnecessary filesystem queries and DB mutex acquires in creating backups and checkpoints.
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