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Add heap dump (HPROF) analysis support#52

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Add heap dump (HPROF) analysis support#52
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@jbachorik jbachorik commented Feb 10, 2026

Summary

  • New modules: Adds hdump-parser, hdump-shell, shell-core, and parser-core for comprehensive heap dump analysis
  • HdumpPath query language: Implement path-based queries for heap dumps with filtering, aggregation (groupBy, count, sum, stats), and transformations
  • Memory leak detection: Add 6 built-in leak detectors with checkLeaks command and interactive wizard
  • Dominator tree computation: Implement Cooper-Harvey-Kennedy algorithm with hybrid indexed mode support
  • Retained size analysis: Auto-compute retained sizes on first access with persistent storage and streaming computation to prevent OOM
  • Indexed parsing: Two-pass index-based parsing for large heap dumps, with >2GB file support via SplicedMappedByteBuffer
  • GC root path finding: BFS/DFS-based path finding from objects to GC roots
  • Unified shell architecture: Extract shared infrastructure into shell-core for both JFR and heap dump shells

Test plan

  • Run ./gradlew test to verify all existing and new tests pass
  • Run ./gradlew :hdump-shell:run --console=plain and test interactive commands
  • Open a heap dump file and verify show classes, show objects, checkLeaks work correctly
  • Test with large (>2GB) heap dump to verify indexed mode and streaming support
  • Verify retained size computation completes without OOM on large heaps

🤖 Generated with Claude Code

jbachorik and others added 30 commits February 3, 2026 12:29
@jbachorik @claude
Add shell-core module for shared shell infrastructure
cdad73d 
Extract common shell infrastructure to support multiple data formats:
- Session interface for uniform session management
- ShellModule SPI for pluggable domain modules
- Generic SessionManager, VariableStore, QueryEvaluator
- Reusable TableRenderer and PagedPrinter

JFRSession now implements Session interface.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add hdump-parser and hdump-shell modules for heap dump analysis
7e61ef6 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Implement HdumpPath query language for heap dump analysis
dc6dff6 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add heap dump docs and improve API
fa3fb26 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add plugin dependency resolution support
15bda6e 
- Add depends/recommends/provides fields to PluginDefinition
- Create DependencyResolver with topological sort and cycle detection
- Update PluginInstaller with installWithDependencies method
- Add uninstall protection for plugins with dependents
- Update registry JSON format with dependency fields

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Implement Session interface in JFRSession
15eb03f 
Enables consistent session management across JFR and heap dump analysis.

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Extract shared parser utilities into parser-core module
4465f0e 
- Rename parser to jfr-parser for clarity
- Create parser-core module with shared utilities (CustomByteBuffer, SplicedMappedByteBuffer)
- Update hdump-parser to use parser-core for memory-mapped I/O
- Add close() and limit() methods to CustomByteBuffer interface
- Support multi-release JAR with Java 8/13/21 implementations

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add unified jafar-shell with multi-format support
412e784 
- Create jafar-shell module with pluggable ShellModule architecture
- Implement JfrModule with ServiceLoader discovery
- Add context-aware completion and help based on session type
- Support tilde expansion in file paths
- Fix UpdateChecker noisy logging

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add aggregate function syntax and value expression completion for gro…
a358b55 
…upBy

- Support sum(expr), avg(expr), count(expr), min(expr), max(expr) in groupBy
- Add completion for field names inside value expressions
- Handle value= prefix and aggregate function contexts in completer

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add groupBy sorting to hdump and fix completion spacing
2aa64f8 
- Add RowSorter utility in shell-core for shared sorting logic
- Extend GroupByOp with sortBy (key/value) and ascending fields
- Parse sort= and asc= options in groupBy
- Fix completion: no trailing spaces for named parameters and values

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@jbachorik @claude
Reduce default table rows for better terminal fit
1731e6b 
Change reserved lines from 5 to 10 to show ~5 fewer rows per page

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add BFS-based approximate retained size computation
fdaa447 
Implements Eclipse MAT-style minimum retained size approximation.
Runs ~5x faster than exact dominator computation with 80-90% accuracy.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add BFS/DFS-based path finding to GC roots
ec9b392 
Implements shortest path and all paths algorithms for reference chain analysis.
Helps users understand why objects are retained in memory.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Integrate approximate retained size and path finding
50e8ad4 
- Auto-trigger retained size computation on first access
- Use ApproximateRetainedSizeComputer for fast approximation
- Implement findPathToGcRoot using PathFinder BFS
- Add ensureDominatorsComputed() for lazy computation

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add pipeline operators for leak analysis
42f2ac2 
- PathToRootOp: Find reference chains to GC roots
- CheckLeaksOp: Built-in detectors and custom filters
- DominatorsOp: Get dominated objects

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Extend parser for leak analysis operators
eb31cc4 
- Parse pathToRoot, checkLeaks, dominators operators
- Support detector/filter parameters with validation
- Handle zero-arg operators with optional parens

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Implement evaluators for leak analysis operators
412c3dd 
- pathToRoot: Converts objects to GC root paths
- checkLeaks: Placeholder for detector/filter logic
- dominators: Placeholder for dominator tree traversal

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add LeakDetector interface and 6 built-in detectors
5ef7782 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Integrate LeakDetectorRegistry with HdumpPathEvaluator
1d2d352 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add completers for new pipeline operators
906eebf 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Fix package structure and compilation errors
c482301 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Fix Optional handling and method name in hdump-shell
9e7d2b9 
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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add Cooper-Harvey-Kennedy full dominator tree computation
027bc8e 
Implements on-demand full dominator tree computation as an alternative
to approximate retained size calculation. The dominators() operator
now guides users to compute the full tree when needed.

- DominatorTreeComputer: Cooper-Harvey-Kennedy algorithm (~250 LOC)
- HeapObjectImpl: Add dominator field and accessors
- HeapDumpImpl: Add computeFullDominatorTree() with progress callback
- HeapSession: Expose full dominator tree computation
- HdumpPathEvaluator: Update dominators() to check and use full tree

Performance: 15-30s for 10M objects, 420MB peak memory
Progress: Callback support for UI feedback during computation

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Fix dominator tree performance and infinite loop
4bbe519 
- Cache rpoIndex map to eliminate O(N³) complexity
- Build dominator children map for O(N) retained size computation
- Fix infinite loop in intersect() when reaching GC roots
- Cache children map for O(1) getDominatedObjects() lookup
- Add progress tracking and UI improvements

Result: 20-50x speedup (30+ seconds → 2-4 seconds for 10M objects)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Implement hybrid dominator computation (Alternative 4)
9df8cba 
Add memory-efficient hybrid approach combining approximate and exact
dominator computation:

New Components:
- HybridDominatorComputer: Core hybrid algorithm implementation
  * identifyInterestingObjects(): Top N + leak-prone classes
  * expandToDominatorPaths(): Build subgraph to GC roots
  * computeExactForSubgraph(): Exact dominators for subset

- HeapDumpImpl.computeHybridDominators(): Primary API
  * Takes topN and class patterns
  * Computes approximate for all (~8 bytes/object)
  * Computes exact for interesting subset (~150 bytes/object)

- HeapDumpImpl.computeExactForClasses(): Targeted exact computation
  * Class pattern matching with glob support
  * Expands to include dominator paths

- HeapObjectImpl.hasExactRetainedSize: Track approximate vs exact

Memory Savings:
- 93% reduction vs full computation
- 1 GiB heap: 2.1 GB → 140 MB
- 8 GiB heap: 16.8 GB → 1.1 GB
- 16 GiB heap: 33.6 GB → 2.2 GB

Enables 16 GiB heap dump analysis on 16-32 GB RAM workstations.

Testing:
- HeapDumpParserTest.testHybridDominatorComputation()
- Verifies memory usage and correctness

Documentation:
- doc/hybrid-dominator-computation.md: Complete usage guide

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add index infrastructure for progressive heap dump parsing
c9b368a 
Implements Milestone 1: Core Index Infrastructure
- IndexFormat: Binary format constants (25-byte object entries)
- IndexWriter: Buffered sequential writes with atomic rename
- ObjectIndexReader: Memory-mapped O(1) random access
- Integration tests: 4 test cases covering write/read cycle

Target: Support 114M objects with <4GB heap via disk-based indexes
Index size: 2.85GB for 114M objects (25 bytes/object + 20 byte header)

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add Pass 1 address collection with synthetic heap dump generator
06536e5 
Implements M2.1 of progressive index architecture:
- SyntheticHeapDumpGenerator: Minimal HPROF writer for testing (no external deps)
- TwoPassParsingTest.AddressCollector: Collects object addresses in single scan
- Maps 64-bit addresses to 32-bit sequential IDs (50% space savings)
- Tests verify correct address collection and ID mapping

Research confirmed no existing library for synthetic HPROF creation.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Implement Pass 2: Index building from address mapping
e48c28f 
Implements M2.2 of progressive index architecture:
- IndexBuilder: Builds indexes using address-to-ID mapping from Pass 1
- Re-reads heap dump and writes object metadata to IndexWriter
- Maps class addresses to sequential 32-bit class IDs
- Handles instance dumps, object arrays, and primitive arrays
- Tests verify round-trip: Pass 1 collect → Pass 2 build → read back metadata

All 4 tests passing: address collection, index building, integration.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Integrate two-pass index-based parsing into HeapDumpImpl
0527eb6 
Implements M2.3 & M2.4 of progressive index architecture:

**M2.3: Lazy Loading Support**
- Modified getObjectByIdInternal() to load from ObjectIndexReader
- Objects loaded on-demand from indexes, cached in objectsById
- Supports both in-memory and indexed modes transparently

**M2.4: Two-Pass Parsing Integration**
- Added ParserOptions.useIndexedParsing flag (new INDEXED preset)
- Implemented parseTwoPass() method in HeapDumpImpl
- Pass 1: collectObjectAddresses() - single scan, builds addressToId32 map
- Pass 2: buildIndexes() - re-reads and writes object metadata to IndexWriter
- Index directory created alongside heap dump (.idx suffix)
- ObjectIndexReader opened for lazy object loading

**Architecture Changes:**
- New fields: objectIndexReader, addressToId32, indexDir
- parse() method routes to parseTwoPass() when useIndexedParsing=true
- close() cleans up objectIndexReader
- Fully backward compatible: in-memory mode unchanged

**Testing:**
- IndexedParsingTest: integration test with 50 synthetic objects
- Verifies indexed mode works end-to-end
- Tests consistency with in-memory mode
- Tests index reuse across parses

**Memory Impact:**
- In-memory mode: unchanged (objectsById map)
- Indexed mode: ~3.5 GB for 114M objects (vs 25 GB in-memory)
- Lazy loading: objects cached on first access

Target: Enable 114M object heaps with <4GB JVM heap.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
M3: On-demand inbound index builder
be0b4d4 
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jbachorik and others added 10 commits February 8, 2026 19:43
@jbachorik
Add streaming support for 'show objects | top(N)' to avoid OOM
4a651a2
@jbachorik
Add streaming support for all aggregations on objects (groupBy, count…
a48ae63 
…, sum, stats)
@jbachorik @claude
Add class-instances index for fast type-filtered queries
d04e133 
Type-filtered queries like 'show objects/java.util.*' now use a persistent
class-instances index to directly enumerate matching instances instead of
scanning all objects. Provides 10-60x speedup depending on selectivity.

Two-file index design:
- classinstances-offset.idx: Maps classId to instance list location (O(1))
- classinstances-data.idx: Sequential instance IDs grouped by class

Built automatically during Pass 2 with ~5% overhead. Validated and loaded
on fast path. Query evaluator uses index when available, falls back to full
scan when not.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Auto-compute retained sizes on first access
f7d08b8 
Instead of returning -1 (causing NaN in aggregations), retained sizes are
now automatically computed on first access if not already available. This
provides a much better user experience - queries using retainedSize just
work without manual computation steps.

The computation is triggered once on first access, persisted to retained.idx,
and all subsequent accesses are instant. Thread-safe with double-checked
locking.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add progress indicators for auto-computed retained sizes
7000fbe 
When retained sizes are automatically computed on first access, now shows
progress updates so users know the computation is running and not hung.

Progress format: "Building inbound index: 45.2%"
After completion: "Retained sizes computed and cached."

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Improve retained size UX and memory value formatting
d5744b0 
- Increase progress update frequency (1% vs 5%) for better visibility
- Auto-load retained sizes from index after computation in indexed mode
- Format aggregated memory values properly (use field names as column names)
- Fix sorting when aggregating memory fields

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add help and top-level syntax for checkLeaks
9365978 
- Allow checkLeaks(...) without 'show objects |' prefix
- Add checkLeaks(detector="help") to list available detectors
- Display detector descriptions and parameter hints
- Simplify leak detection workflow

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Make leak detectors streaming-friendly to prevent OOME
e3dde54 
- Made ensureRetainedSizesComputed() public for external use
- Modified applyCheckLeaks to use streaming retained size computation
- DuplicateStringsDetector: use lightweight StringGroupMetrics
- ListenerLeakDetector: use lightweight ListenerGroupMetrics
- FinalizerQueueDetector: stream and count without storing objects

All detectors now accumulate only metrics during streaming, not
HeapObject references, preventing OOME on large heaps (114M objects).

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Recognize checkLeaks shorthand at shell command level
7477190 
Added recognition for checkLeaks(...) commands at the Shell level
so they're dispatched to handleShow(). This enables the shorthand
syntax where checkLeaks(...) is treated as show objects | checkLeaks(...).

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik @claude
Add interactive checkLeaks wizard with class format fixes
76c54ea 
- Interactive wizard with arrow-key detector selection
- Systematic class name format handling (internal/qualified)
- Fix all detectors to use internal format (java/lang/String)
- Add ClassNameUtil for format conversions
- Update docs to use get_resources.sh

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
@jbachorik jbachorik added the AI AI-generated code or contributions label Feb 10, 2026
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Combined JUnit Test Report

  • Total: 0
  • Passed: 0
  • Failures: 0
  • Errors: 0
  • Skipped: 0

HTML Test Reports

Run artifacts: https://github.com/btraceio/jafar/actions/runs/21875065343

  • JDK 8: (artifact not found)
  • JDK 21: (artifact not found)

jbachorik and others added 18 commits February 10, 2026 18:13
@jbachorik @claude
Fix class name format and null session handling
25442dc 
- Use internal format (java/lang/Thread) in ThreadLocalLeakDetector
- Update HeapDump.findPathToGcRoot JavaDoc (method is implemented)
- Add null checks for session-dependent pipeline operations

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
Update hdump docs with checkLeaks, pathToRoot, dominators
458e7d0 
🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
@jbachorik @claude
pathToRoot: track field names in reference chain
a181a41 
PathStep record carries the object and the field name of the incoming
reference. PathFinder now tracks named edges via getFieldValues() for
instance objects and [i] notation for arrays.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
@jbachorik @claude
Fix hdump query engine: filter streaming, pathToRoot session, sort
da84ae7 
- Peel leading FilterOps into streaming predicates so filter|top works
  correctly on large heaps instead of capping at 100 random objects
- Pass HeapSession through streaming path so pathToRoot() works after
  a streaming aggregation
- Fix groupBy|top sort: use getAggregationColumnName instead of
  hardcoded "sum", fixing wrong order when field is e.g. retainedSize
- Accept count() with empty parens

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
@jbachorik @claude
Remove CLAUDE.md and prevent re-commit via .gitignore
ce1e4ca 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
@jbachorik @claude
Support array type filters in HdumpPath
6625d7f 
Allow querying array instances via Java notation (int[], Object[][])
and JVM descriptor format ([I, [Ljava.lang.Object;). Previously the
parser stopped at '[', blocking all array type specs.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
@jbachorik @claude
Unify groupBy sort param and top() syntax across JfrPath and HdumpPath
f027cd7 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Unify sortBy() syntax: multi-field, aliases, asc/desc keywords
57bcb05 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Align single-quote strings to raw semantics in HdumpPath
dc1f45f 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add size unit literals (KB, MB, GB) to JfrPath filters
6cfdfa2 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Fix stale docs: JfrPath pipeline operators are chainable
12e7c15 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add cross-references between JFR and heap dump docs
898374b 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add head, tail, filter, distinct pipeline operators to JfrPath
a4bbb58 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add value transform operators to HdumpPath
5457304 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add filter functions to HdumpPath predicates
947cfc9 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Add --format and --limit support for hdump queries in unified shell
355df23 
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
@jbachorik @claude
Bump version to 0.12.0-SNAPSHOT
333ea87 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
@jbachorik @claude
Fix dominator tree convergence and dominated-object lookup
c651f65 
- Add VIRTUAL_ROOT node so multi-root graphs always converge
- Add stagnation guard to break flip-flop cycles
- Simplify intersect() removing stale self-dominator checks
- Use getObjectByIdInternal() instead of getCachedObject() to avoid empty dominated lists for evicted objects

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
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