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[#1009] New QueryAnswerElement to get hops in QueryAnswer paths - #1154

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[#1009] New QueryAnswerElement to get hops in QueryAnswer paths#1154
andre-senna merged 15 commits into
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senna-1009-10

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@andre-senna andre-senna commented Jun 18, 2026

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This PR is a follow-up yet in the context of #1009

Here we introduced a new QueryAnswerElement to allow getting path hops instead of path links. For instance, if a QueryAnswer has a path like [(a, b), (b, c), (c, d)], the previous QueryAnswerElement PATH allowed the retrieving of the links in the path, i.e. (a, b), (b, c) and (c, d). The new element PATH_HOPS allows retrieving of [a, b, c, d] with optional flags to reverse the path or pop out the first and/or the last hop.

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Walkthrough

The PR extends QueryAnswerElement with a PATH_HOPS variant to support hop-range-based handle resolution, updates QueryAnswer::get_all to accept a HandleDecoder for decoding link hops, and wires a new DECODER member into QueryEvolutionProcessor for wildcard correlation/stimulation and human-readable answer logging. QueryEvolutionProxy gains generation tracking to record when answers improve. Separately, the evaluation harness tunes link-creation thresholds, flips POSITIVE_IMPORTANCE_FLAG, refactors visited-at-least-one tracking, adds AttentionBrokerClient stimulation calls at context load and iteration start, and adjusts hyperparameter ranges and loop nesting in toy_tunning.sh.

Changes

PATH_HOPS element type and DECODER integration

Layer / File(s) Summary
PATH_HOPS data contract: fields, constructors, serialization
src/agents/query_engine/QueryAnswer.h
QueryAnswerElement gains hop_peek_start, hop_peek_end, reverse_path, pop_first, pop_last fields with new constructors and copy/assignment operators; PATH_HOPS added to ElementType enum; to_string made const and updated to emit ^/$ prefixes for path variants and </> direction markers for PATH_HOPS; from_string updated to parse new serialization formats; get_all signature gains optional HandleDecoder* decoder parameter.
PATH_HOPS resolution in get_all with HandleDecoder
src/agents/query_engine/QueryAnswer.cc
get_all adds a PATH_HOPS case that validates decoder is non-null, checks path index bounds, decodes each handle to a Link, selects hop targets respecting reverse_path direction, and trims results via pop_first and pop_last.
DECODER member and get_all integration in QueryEvolutionProcessor
src/agents/evolution/QueryEvolutionProcessor.h, src/agents/evolution/QueryEvolutionProcessor.cc
QueryEvolutionProcessor gains private HandleDecoder* decoder initialized from AtomDBSingleton in constructor; correlate_similar and stimulate pass decoder to all get_all call sites; select_best_individuals reorders population_size computation before deriving selection count.
Fitness accumulation, answer-to-string helpers, and evolve_query logging
src/agents/evolution/QueryEvolutionProcessor.cc
sample_population accumulates running sum of fitness values and logs average as sum / population.size(); helper methods answer_to_string_1, answer_to_string_2, and answer_to_string build readable path strings by resolving link targets through AtomDB and decoding with decoder; evolve_query logs each sampled individual (DEBUG level) and selected individual with readable representations.
Generation tracking in QueryEvolutionProxy
src/agents/evolution/QueryEvolutionProxy.h, src/agents/evolution/QueryEvolutionProxy.cc
QueryEvolutionProxy adds private last_generation_with_answer_report member; init initializes to 0; new_population_sampled increments generation at loop start and updates report field when best fitness improves; public last_improving_generation() accessor returns tracked generation under mutex protection; evolve_query logs generation after evolution loop completes.
Test coverage: QueryAnswer, QueryEvolution, and AndOperator
src/tests/cpp/query_answer_test.cc, src/tests/cpp/query_evolution_test.cc, src/tests/cpp/and_operator_test.cc
TestDecoder helper class added to store atoms by handle and synthesize Link atoms; get_query_answer_element expanded with elements 17-34 using various flag combinations; decoder-based get_all validated for elements 17-32 with expected decoded vectors; decoder-less calls to elements 33-34 verified to throw; query_evolution_test expanded with elements e9-e19 and expected to_string output updated; unused variables removed from and_operator_test.

evaluation_evolution harness tuning

Layer / File(s) Summary
Link-creation thresholds and attempt limits
src/tests/main/evaluation_evolution.cc
LINK_CREATION_STRENGTH_THRESHOLD lowered from 0.5 to 0.1 (except during SETUP_ONLY); new global LINK_CREATION_MAX_ATTEMPTS = 500 added; POSITIVE_IMPORTANCE_FLAG flipped to enabled for link-building queries.
Visited-at-least-one out-parameter refactor across link builders
src/tests/main/evaluation_evolution.cc
build_implication_link, build_equivalence_link, and build_evaluation_link replace none_visited out-parameter with visited_at_least_one (inverted semantics), initializing to false and setting to true when new candidates are processed; build_links updated to track two failure counters—one for repeated non-creating visits and one for total attempts without new candidates—and applies both limits to termination logic.
Query evolution correlation mapping and importance flag
src/tests/main/evaluation_evolution.cc
query_evolution refactors correlation mapping from a single all-paths element to two explicit path elements (qa_path1 and qa_path2); POSITIVE_IMPORTANCE_FLAG flipped to enabled for evolution query proxy parameters.
AttentionBrokerClient stimulation at context load and iteration start
src/tests/main/evaluation_evolution.cc
Adds AttentionBrokerClient::stimulate calls with target predicate/concept handles immediately after context is dropped/loaded, at the beginning of each iteration before link building, and after setting determiners before query evolution.
toy_tunning.sh hyperparameter lists and loop order
src/tests/scripts/toy_tunning.sh
RENT_LIST, SPREAD_LIST, and SELECTION_LIST hyperparameter values updated; loop nesting reordered so SELECTION_LIST is outermost, followed by RENT_LIST, then SPREAD_LIST; tee and grep pipeline replaced with direct ${command_line[@]} invocation.

Estimated code review effort

🎯 4 (Complex) | ⏱️ ~60 minutes


Caution

Pre-merge checks failed

Please resolve all errors before merging. Addressing warnings is optional.

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❌ Failed checks (1 error)

Check name Status Explanation Resolution
Tests For Behavior Changes ❌ Error New public API method QueryEvolutionProxy::last_improving_generation() added but not tested; PATH_HOPS feature is well-tested, but untested public API change violates coverage requirement. Add unit test for QueryEvolutionProxy::last_improving_generation() method in src/tests/cpp/query_evolution_test.cc or explain in PR description why test is intentionally omitted.
✅ Passed checks (4 passed)
Check name Status Explanation
Title check ✅ Passed The title clearly and specifically describes the main change: introducing a new QueryAnswerElement type (PATH_HOPS) for retrieving path hops in QueryAnswer.
Description check ✅ Passed The description provides a clear, concrete explanation of the enhancement: the distinction between the existing PATH element and the new PATH_HOPS element, with a specific example.
Linked Issues check ✅ Passed Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check ✅ Passed Check skipped because no linked issues were found for this pull request.
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Actionable comments posted: 7

Caution

Some comments are outside the diff and can’t be posted inline due to platform limitations.

⚠️ Outside diff range comments (2)
src/tests/scripts/toy_tunning.sh (1)

8-8: ⚠️ Potential issue | 🔴 Critical | ⚡ Quick win

Incomplete refactor: /tmp/run_toy.log managed but never populated.

Line 8 includes /tmp/run_toy.log in the log_files array, which causes the script to clean it (lines 10-12) and append headers to it (lines 24-29). However, line 30 no longer pipes command output through tee /tmp/run_toy.log, so the file will only contain headers and never capture the actual run output.

Either remove /tmp/run_toy.log from the log_files array on line 8, or restore the tee pipeline on line 30.

Proposed fix: remove unused log file from array
-log_files=("/tmp/ab.log" "/tmp/qa.log" "/tmp/ev.log" "/tmp/run_toy.log")
+log_files=("/tmp/ab.log" "/tmp/qa.log" "/tmp/ev.log")

Also applies to: 30-30

Prompt for AI Agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

In `@src/tests/scripts/toy_tunning.sh` at line 8, The log_files array on line 8
includes /tmp/run_toy.log, which causes the script to initialize and manage this
file (cleaning it and adding headers in lines 10-12 and 24-29), but the command
execution on line 30 no longer pipes output to this file using tee, resulting in
an empty log file with only headers. Either remove /tmp/run_toy.log from the
log_files array definition on line 8, or restore the tee /tmp/run_toy.log pipe
at the end of line 30 to actually capture the command output.
src/agents/query_engine/QueryAnswer.h (1)

44-51: ⚠️ Potential issue | 🔴 Critical | ⚡ Quick win

Uninitialized members in constructors.

The default constructor and ElementType constructor do not initialize hop_peek_start, hop_peek_end, pop_first, and pop_last. These will have indeterminate values which get copied by the copy constructor and assignment operator regardless of element type, leading to potential undefined behavior.

Proposed fix
     QueryAnswerElement()
-        : type(NOTHING), path_index(0), element_index(0), name(""), reverse_path(false) {}
+        : type(NOTHING), path_index(0), element_index(0), name(""),
+          hop_peek_start(0), hop_peek_end(0), reverse_path(false), pop_first(false), pop_last(false) {}
     QueryAnswerElement(ElementType type) : type(type) {
+        this->hop_peek_start = 0;
+        this->hop_peek_end = 0;
+        this->reverse_path = false;
+        this->pop_first = false;
+        this->pop_last = false;
         if ((type <= VARIABLE) || (type == PATH_HOPS)) {
Prompt for AI Agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

In `@src/agents/query_engine/QueryAnswer.h` around lines 44 - 51, The default
QueryAnswerElement() constructor and the QueryAnswerElement(ElementType type)
constructor are missing initializers for the member variables hop_peek_start,
hop_peek_end, pop_first, and pop_last in their initialization lists. Add proper
initialization for these members in both constructors (to appropriate default
values like 0 or false depending on their types) to prevent undefined behavior
from uninitialized data being copied by the copy constructor and assignment
operator.
Nitpick comments (2)
src/agents/evolution/QueryEvolutionProcessor.h (1)

84-84: ⚡ Quick win

Rename DECODER to snake_case and use this-> member access consistently.

The new field name diverges from local member conventions and is then used directly across the implementation, which reduces consistency and readability.

Proposed fix
-    HandleDecoder* DECODER;
+    HandleDecoder* decoder;
-    DECODER = static_pointer_cast<HandleDecoder>(AtomDBSingleton::get_instance()).get();
+    this->decoder = static_pointer_cast<HandleDecoder>(AtomDBSingleton::get_instance()).get();
-    for (string handle : selected_answer->get_all(pair.first, DECODER)) {
+    for (string handle : selected_answer->get_all(pair.first, this->decoder)) {
-    path = target1->metta_representation(*DECODER) + path_link;
+    path = target1->metta_representation(*this->decoder) + path_link;

As per coding guidelines, "Use snake_case for C++ method and field names" and "Access class members with this->field consistently in C++".

Prompt for AI Agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

In `@src/agents/evolution/QueryEvolutionProcessor.h` at line 84, Rename the member
variable DECODER to decoder_ to follow C++ snake_case conventions for field
names in QueryEvolutionProcessor.h. Then update all references to this member
variable throughout the implementation to use this->decoder_ instead of
accessing it directly, ensuring consistent member access patterns across the
class.

Source: Coding guidelines

src/tests/cpp/query_answer_test.cc (1)

516-555: ⚡ Quick win

Add explicit assertions for the remaining PATH_HOPS decoder error branches.

This block covers nominal decoding and null decoder, but it does not assert the get_atom(handle) == nullptr and non-Link atom failure paths in QueryAnswer::get_all. Adding those two EXPECT_THROW cases will lock in the new contract and reduce regression risk.

As per coding guidelines, "Prioritize tests for real behavior: error paths, boundary conditions, thread/proxy interactions, and regressions — not trivial assertions."

Prompt for AI Agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

In `@src/tests/cpp/query_answer_test.cc` around lines 516 - 555, The test block
for QueryAnswer::get_all currently tests nominal decoding cases and one error
path but is missing assertions for two error conditions in the PATH_HOPS
decoder. Add two additional EXPECT_THROW assertions to test the get_atom(handle)
== nullptr failure case and the non-Link atom failure case in
QueryAnswer::get_all. These should be inserted appropriately in the test block
to ensure both error paths are covered and will help prevent regressions by
explicitly locking in the error contract.

Source: Coding guidelines

Prompt for all review comments with AI agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

Inline comments:
In `@src/agents/evolution/QueryEvolutionProcessor.cc`:
- Around line 483-486: The code in QueryEvolutionProcessor.cc calls
db->get_link() and immediately dereferences the result without null checks,
which can cause crashes if get_link returns nullptr. Additionally, indexing into
link->targets[1] and link->targets[2] without verifying the link has sufficient
targets is unsafe. Add null pointer checks after each db->get_link() call and
verify the link has adequate arity (check link->arity or targets.size()) before
accessing targets by index. Apply these guards at all locations mentioned: lines
484-485, 488-490, 513-516, and 518-520 in the file.
- Around line 565-567: The unconditional INFO logging in the population
iteration loops using LOG_INFO with answer_to_string calls is causing
performance issues on larger populations due to expensive DB lookups during
answer formatting. Modify or remove the per-individual logging statements in
both the loop iterating over the population variable (around the
answer_to_string call) and the corresponding logging at lines 576-578 to use
conditional DEBUG-level logging instead of unconditional INFO logging, or remove
them entirely if they are not critical for normal operation.

In `@src/agents/query_engine/QueryAnswer.cc`:
- Line 445: The variable `path` in the `get_path_vector(key.path_index)` call is
declared with `auto`, which creates an unnecessary copy of the returned vector
reference. Change the declaration from `auto path` to `auto& path` to use a
reference instead, avoiding the allocation overhead for paths with many handles.
- Around line 458-472: The code accesses link->targets with indices
key.hop_peek_start and key.hop_peek_end without validating these indices are
within bounds of the targets container. Add bounds checks before each access to
link->targets to ensure key.hop_peek_start and key.hop_peek_end do not exceed
the size of link->targets. Verify the container has sufficient elements before
attempting to access at these indices in both the first_handle block and the
subsequent key.reverse_path conditional blocks to prevent undefined behavior
from out-of-bounds access.

In `@src/agents/query_engine/QueryAnswer.h`:
- Around line 210-238: The code accesses s[2] at lines 217 and 224 without
verifying that the string has at least 3 characters. When the string has exactly
2 characters (like ">^"), accessing s[2] causes an out-of-bounds read. Add
length checks using s.size() > 2 before the inner conditionals that access s[2]
in both the pop_first and pop_last branches. This ensures that index 2 is only
accessed when it is guaranteed to exist within the string.
- Around line 135-145: The four-parameter `set()` method in QueryAnswer.h sets
the type to PATH_HOPS but fails to initialize the `hop_peek_start` and
`hop_peek_end` member fields, leaving them with undefined values that will cause
errors when `get_all()` uses them for indexing. Initialize these two fields in
the `set(unsigned int key_path, bool reverse, bool pop_first, bool pop_last)`
method to appropriate default values (such as 0 for `hop_peek_start` and
UINT_MAX for `hop_peek_end`) to match the initialization pattern used in the
PATH_HOPS constructors.

In `@src/tests/main/evaluation_evolution.cc`:
- Around line 775-776: The variable names count_visit_attemps and count_attemps
contain a spelling error where "attemps" should be "attempts". Rename both
variables to count_visit_attempts and count_attempts respectively to match the
spelling convention used in LINK_CREATION_MAX_ATTEMPTS and improve code
readability and greppability. Make sure to update all usages of these variables
throughout the code where they are referenced or incremented to maintain
consistency across the file.

---

Outside diff comments:
In `@src/agents/query_engine/QueryAnswer.h`:
- Around line 44-51: The default QueryAnswerElement() constructor and the
QueryAnswerElement(ElementType type) constructor are missing initializers for
the member variables hop_peek_start, hop_peek_end, pop_first, and pop_last in
their initialization lists. Add proper initialization for these members in both
constructors (to appropriate default values like 0 or false depending on their
types) to prevent undefined behavior from uninitialized data being copied by the
copy constructor and assignment operator.

In `@src/tests/scripts/toy_tunning.sh`:
- Line 8: The log_files array on line 8 includes /tmp/run_toy.log, which causes
the script to initialize and manage this file (cleaning it and adding headers in
lines 10-12 and 24-29), but the command execution on line 30 no longer pipes
output to this file using tee, resulting in an empty log file with only headers.
Either remove /tmp/run_toy.log from the log_files array definition on line 8, or
restore the tee /tmp/run_toy.log pipe at the end of line 30 to actually capture
the command output.

---

Nitpick comments:
In `@src/agents/evolution/QueryEvolutionProcessor.h`:
- Line 84: Rename the member variable DECODER to decoder_ to follow C++
snake_case conventions for field names in QueryEvolutionProcessor.h. Then update
all references to this member variable throughout the implementation to use
this->decoder_ instead of accessing it directly, ensuring consistent member
access patterns across the class.

In `@src/tests/cpp/query_answer_test.cc`:
- Around line 516-555: The test block for QueryAnswer::get_all currently tests
nominal decoding cases and one error path but is missing assertions for two
error conditions in the PATH_HOPS decoder. Add two additional EXPECT_THROW
assertions to test the get_atom(handle) == nullptr failure case and the non-Link
atom failure case in QueryAnswer::get_all. These should be inserted
appropriately in the test block to ensure both error paths are covered and will
help prevent regressions by explicitly locking in the error contract.
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Files selected for processing (9)
  • src/agents/evolution/QueryEvolutionProcessor.cc
  • src/agents/evolution/QueryEvolutionProcessor.h
  • src/agents/query_engine/QueryAnswer.cc
  • src/agents/query_engine/QueryAnswer.h
  • src/tests/cpp/and_operator_test.cc
  • src/tests/cpp/query_answer_test.cc
  • src/tests/cpp/query_evolution_test.cc
  • src/tests/main/evaluation_evolution.cc
  • src/tests/scripts/toy_tunning.sh
💤 Files with no reviewable changes (1)
  • src/tests/cpp/and_operator_test.cc

Comment thread src/agents/evolution/QueryEvolutionProcessor.cc
Comment thread src/agents/evolution/QueryEvolutionProcessor.cc
Comment thread src/agents/query_engine/QueryAnswer.cc Outdated
Comment thread src/agents/query_engine/QueryAnswer.cc
Comment thread src/agents/query_engine/QueryAnswer.h
Comment thread src/agents/query_engine/QueryAnswer.h
Comment thread src/tests/main/evaluation_evolution.cc Outdated

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Actionable comments posted: 2

Prompt for all review comments with AI agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

Inline comments:
In `@src/agents/evolution/QueryEvolutionProxy.cc`:
- Around line 224-238: The new_population_sampled method modifies shared state
variables (num_generations, best_reported_fitness, and
last_generation_with_answer_report) without acquiring the api_mutex lock, while
other parts of the code read these same variables under lock protection (as seen
at line 306), creating a race condition. Wrap the entire block that mutates
these three variables with a lock_guard pattern using this->api_mutex to ensure
thread-safe access to shared state and eliminate the undefined behavior window.

In `@src/agents/evolution/QueryEvolutionProxy.h`:
- Line 208: The member variable last_generation_with_answer_report is not
initialized in the init() method, leaving it uninitialized when the class is
constructed. This causes undefined behavior when last_improving_generation() is
called. Add an initialization statement in the init() method to set
last_generation_with_answer_report to 0 (or an appropriate sentinel value). This
ensures the member variable has a deterministic state from construction, even
before new_population_sampled() has a chance to conditionally assign it.
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Files selected for processing (9)
  • src/agents/evolution/QueryEvolutionProcessor.cc
  • src/agents/evolution/QueryEvolutionProcessor.h
  • src/agents/evolution/QueryEvolutionProxy.cc
  • src/agents/evolution/QueryEvolutionProxy.h
  • src/agents/query_engine/QueryAnswer.cc
  • src/agents/query_engine/QueryAnswer.h
  • src/tests/cpp/query_answer_test.cc
  • src/tests/main/evaluation_evolution.cc
  • src/tests/scripts/toy_tunning.sh
🚧 Files skipped from review as they are similar to previous changes (6)
  • src/agents/evolution/QueryEvolutionProcessor.h
  • src/tests/scripts/toy_tunning.sh
  • src/tests/cpp/query_answer_test.cc
  • src/agents/query_engine/QueryAnswer.cc
  • src/agents/evolution/QueryEvolutionProcessor.cc
  • src/tests/main/evaluation_evolution.cc

Comment thread src/agents/evolution/QueryEvolutionProxy.cc
Comment thread src/agents/evolution/QueryEvolutionProxy.h

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Actionable comments posted: 1

Prompt for all review comments with AI agents
Verify each finding against current code. Fix only still-valid issues, skip the
rest with a brief reason, keep changes minimal, and validate.

Inline comments:
In `@src/agents/evolution/QueryEvolutionProxy.cc`:
- Around line 225-227: The function
`QueryEvolutionProxy::new_population_sampled` has invalid C++ syntax where a
lock_guard statement with a semicolon appears in the parameter list instead of
the function body. Remove the `lock_guard<mutex> semaphore(this->api_mutex);`
line from the parameter list on line 225, then add it as the first statement
inside the function body of `new_population_sampled`, ensuring proper C++ syntax
by removing the semicolon from the parameter context and making it a valid
statement within the function scope.
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  • src/agents/evolution/QueryEvolutionProxy.cc

Comment thread src/agents/evolution/QueryEvolutionProxy.cc Outdated
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✅ Action performed

Comments resolved and changes approved.

@andre-senna
andre-senna merged commit f3517c6 into master Jun 20, 2026
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@andre-senna
andre-senna deleted the senna-1009-10 branch June 20, 2026 02:54
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