Merge branch 'dev' of https://github.com/VirtualFlyBrain/VFBquery into dev

Author: Robbie1977

performance.md

@@ -1,9 +1,9 @@
 # VFBquery Performance Test Results
 
-**Test Date:** 2025-11-19 12:07:12 UTC
-**Git Commit:** 3f091758ffb82416c50fe058cdf6d8f7673838f6
+**Test Date:** 2025-11-19 12:16:14 UTC
+**Git Commit:** 985205e61f027fe0f686609cdd92b899ce0e2176
 **Branch:** dev
-**Workflow Run:** [19500686316](https://github.com/VirtualFlyBrain/VFBquery/actions/runs/19500686316)
+**Workflow Run:** [19500927839](https://github.com/VirtualFlyBrain/VFBquery/actions/runs/19500927839)
 
 ## Test Overview
 
@@ -119,107 +119,107 @@ TERM INFO QUERIES
 DEBUG: Checking cache for term_info, term_id=FBbt_00003748, cache_term_id=FBbt_00003748_preview_True, should_cache=True
 DEBUG: Attempting cache lookup for term_info(FBbt_00003748_preview_True) with full results
 DEBUG: Cache lookup result: True
-get_term_info (mushroom body): 1.4566s ✅
+get_term_info (mushroom body): 1.7201s ✅
 DEBUG: Checking cache for term_info, term_id=VFB_00101567, cache_term_id=VFB_00101567_preview_True, should_cache=True
 DEBUG: Attempting cache lookup for term_info(VFB_00101567_preview_True) with full results
 DEBUG: Cache lookup result: True
-get_term_info (individual): 1.7410s ✅
+get_term_info (individual): 1.8806s ✅
 
 ================================================================================
 NEURON PART OVERLAP QUERIES
 ================================================================================
 DEBUG: Checking cache for neurons_part_here, term_id=FBbt_00007401, cache_term_id=FBbt_00007401_dataframe_False, should_cache=True
 DEBUG: Attempting cache lookup for neurons_part_here(FBbt_00007401_dataframe_False) with full results
 DEBUG: Cache lookup result: True
-NeuronsPartHere: 1.9359s ✅
+NeuronsPartHere: 1.9511s ✅
 
 ================================================================================
 SYNAPTIC TERMINAL QUERIES
 ================================================================================
 DEBUG: Checking cache for neurons_synaptic, term_id=FBbt_00007401, cache_term_id=FBbt_00007401_dataframe_False, should_cache=True
 DEBUG: Attempting cache lookup for neurons_synaptic(FBbt_00007401_dataframe_False) with full results
 DEBUG: Cache lookup result: True
-NeuronsSynaptic: 1.8728s ✅
+NeuronsSynaptic: 1.7092s ✅
 DEBUG: Checking cache for neurons_presynaptic, term_id=FBbt_00007401, cache_term_id=FBbt_00007401_dataframe_False, should_cache=True
 DEBUG: Attempting cache lookup for neurons_presynaptic(FBbt_00007401_dataframe_False) with full results
 DEBUG: Cache lookup result: True
-NeuronsPresynapticHere: 1.3168s ✅
+NeuronsPresynapticHere: 1.4699s ✅
 DEBUG: Checking cache for neurons_postsynaptic, term_id=FBbt_00007401, cache_term_id=FBbt_00007401_dataframe_False, should_cache=True
 DEBUG: Attempting cache lookup for neurons_postsynaptic(FBbt_00007401_dataframe_False) with full results
 DEBUG: Cache lookup result: True
-NeuronsPostsynapticHere: 1.8067s ✅
+NeuronsPostsynapticHere: 1.9085s ✅
 DEBUG: Checking cache for neuron_neuron_connectivity_query, term_id=VFB_jrchk00s, cache_term_id=VFB_jrchk00s, should_cache=True
 DEBUG: Attempting cache lookup for neuron_neuron_connectivity_query(VFB_jrchk00s) with full results
 DEBUG: Cache lookup result: True
-NeuronNeuronConnectivity: 1.4336s ✅
+NeuronNeuronConnectivity: 1.5727s ✅
 
 ================================================================================
 ANATOMICAL HIERARCHY QUERIES
 ================================================================================
 DEBUG: Checking cache for components_of, term_id=FBbt_00003748, cache_term_id=FBbt_00003748, should_cache=True
 DEBUG: Attempting cache lookup for components_of(FBbt_00003748) with full results
 DEBUG: Cache lookup result: True
-ComponentsOf: 1.6607s ✅
+ComponentsOf: 1.5803s ✅
 DEBUG: Checking cache for parts_of, term_id=FBbt_00003748, cache_term_id=FBbt_00003748, should_cache=True
 DEBUG: Attempting cache lookup for parts_of(FBbt_00003748) with full results
 DEBUG: Cache lookup result: True
-PartsOf: 1.3447s ✅
+PartsOf: 1.2707s ✅
 DEBUG: Checking cache for subclasses_of, term_id=FBbt_00003748, cache_term_id=FBbt_00003748, should_cache=True
 DEBUG: Attempting cache lookup for subclasses_of(FBbt_00003748) with full results
 DEBUG: Cache lookup result: True
-SubclassesOf: 1.2763s ✅
+SubclassesOf: 1.3616s ✅
 
 ================================================================================
 TRACT/NERVE AND LINEAGE QUERIES
 ================================================================================
 DEBUG: Checking cache for neuron_classes_fasciculating_here, term_id=FBbt_00003987, cache_term_id=FBbt_00003987, should_cache=True
 DEBUG: Attempting cache lookup for neuron_classes_fasciculating_here(FBbt_00003987) with full results
 DEBUG: Cache lookup result: True
-NeuronClassesFasciculatingHere: 1.2104s ✅
+NeuronClassesFasciculatingHere: 1.3279s ✅
 DEBUG: Checking cache for tracts_nerves_innervating_here, term_id=FBbt_00007401, cache_term_id=FBbt_00007401, should_cache=True
 DEBUG: Attempting cache lookup for tracts_nerves_innervating_here(FBbt_00007401) with full results
 DEBUG: Cache lookup result: True
-TractsNervesInnervatingHere: 1.1817s ✅
+TractsNervesInnervatingHere: 1.2656s ✅
 DEBUG: Checking cache for lineage_clones_in, term_id=FBbt_00007401, cache_term_id=FBbt_00007401, should_cache=True
 DEBUG: Attempting cache lookup for lineage_clones_in(FBbt_00007401) with full results
 DEBUG: Cache lookup result: True
-LineageClonesIn: 1.1949s ✅
+LineageClonesIn: 1.2401s ✅
 
 ================================================================================
 IMAGE AND DEVELOPMENTAL QUERIES
 ================================================================================
 DEBUG: Checking cache for images_neurons, term_id=FBbt_00007401, cache_term_id=FBbt_00007401, should_cache=True
 DEBUG: Attempting cache lookup for images_neurons(FBbt_00007401) with full results
 DEBUG: Cache lookup result: True
-ImagesNeurons: 1.1886s ✅
+ImagesNeurons: 1.2721s ✅
 DEBUG: Checking cache for images_that_develop_from, term_id=FBbt_00001419, cache_term_id=FBbt_00001419, should_cache=True
 DEBUG: Attempting cache lookup for images_that_develop_from(FBbt_00001419) with full results
 DEBUG: Cache lookup result: True
-ImagesThatDevelopFrom: 1.3549s ✅
+ImagesThatDevelopFrom: 1.4374s ✅
 DEBUG: Checking cache for expression_pattern_fragments, term_id=FBtp0000001, cache_term_id=FBtp0000001, should_cache=True
 DEBUG: Attempting cache lookup for expression_pattern_fragments(FBtp0000001) with full results
 DEBUG: Cache lookup result: True
-epFrag: 1.2831s ✅
+epFrag: 1.2363s ✅
 
 ================================================================================
 INSTANCE QUERIES
 ================================================================================
 DEBUG: Checking cache for instances, term_id=FBbt_00003982, cache_term_id=FBbt_00003982, should_cache=True
 DEBUG: Attempting cache lookup for instances(FBbt_00003982) with full results
 DEBUG: Cache lookup result: True
-ListAllAvailableImages: 1.1887s ✅
+ListAllAvailableImages: 1.2543s ✅
 
 ================================================================================
 CONNECTIVITY QUERIES
 ================================================================================
 DEBUG: Checking cache for neuron_neuron_connectivity_query, term_id=VFB_jrchk00s, cache_term_id=VFB_jrchk00s, should_cache=True
 DEBUG: Attempting cache lookup for neuron_neuron_connectivity_query(VFB_jrchk00s) with full results
 DEBUG: Cache lookup result: True
-NeuronNeuronConnectivityQuery: 1.2725s ✅
+NeuronNeuronConnectivityQuery: 1.2490s ✅
 DEBUG: Checking cache for neuron_region_connectivity_query, term_id=VFB_jrchk00s, cache_term_id=VFB_jrchk00s, should_cache=True
 DEBUG: Attempting cache lookup for neuron_region_connectivity_query(VFB_jrchk00s) with full results
 DEBUG: Cache lookup result: True
-NeuronRegionConnectivityQuery: 1.1912s ✅
+NeuronRegionConnectivityQuery: 1.2504s ✅
 
 ================================================================================
 SIMILARITY QUERIES (Neo4j NBLAST)
@@ -228,18 +228,18 @@ DEBUG: Checking cache for similar_neurons, term_id=VFB_jrchk00s, cache_term_id=V
 DEBUG: Attempting cache lookup for similar_neurons(VFB_jrchk00s_dataframe_False) with full results
 DEBUG: Cache lookup result: True
 DEBUG: Sliced cached dict result to 5 rows
-SimilarMorphologyTo: 0.7053s ✅
+SimilarMorphologyTo: 0.6695s ✅
 
 ================================================================================
 NEURON INPUT QUERIES (Neo4j)
 ================================================================================
 ✅ Neo4j connection established
-NeuronInputsTo: 3.1300s ✅
+NeuronInputsTo: 2.9366s ✅
 
 ================================================================================
 EXPRESSION PATTERN QUERIES (Neo4j)
 ================================================================================
-ExpressionOverlapsHere: 0.8392s ✅
+ExpressionOverlapsHere: 0.8070s ✅
   └─ Found 3922 total expression patterns, returned 10
 ok
 test_12_nblast_queries (src.test.test_query_performance.QueryPerformanceTest)
@@ -250,58 +250,58 @@ test_14_publication_transgene_queries (src.test.test_query_performance.QueryPerf
 Test publication and transgene queries ... ok
 
 ----------------------------------------------------------------------
-Ran 15 tests in 42.091s
+Ran 15 tests in 42.950s
 
 OK
 
 ================================================================================
 TRANSCRIPTOMICS QUERIES (Neo4j scRNAseq)
 ================================================================================
-anatScRNAseqQuery: 0.7409s ✅
+anatScRNAseqQuery: 0.7355s ✅
   └─ Found 0 total clusters
-clusterExpression: 0.6443s ✅
+clusterExpression: 0.7580s ✅
   └─ Found 0 genes expressed
-expressionCluster: 0.7695s ✅
+expressionCluster: 0.6276s ✅
   └─ Found 0 clusters expressing gene
-scRNAdatasetData: 0.6882s ✅
+scRNAdatasetData: 0.6643s ✅
   └─ Found 0 clusters in dataset
 
 ================================================================================
 NBLAST SIMILARITY QUERIES
 ================================================================================
-SimilarMorphologyTo: 0.8386s ✅
+SimilarMorphologyTo: 0.8030s ✅
   └─ Found 227 NBLAST matches, returned 10
-SimilarMorphologyToPartOf: 0.4894s ✅
+SimilarMorphologyToPartOf: 0.6130s ✅
   └─ Found 0 NBLASTexp matches
-SimilarMorphologyToPartOfexp: 0.6695s ✅
+SimilarMorphologyToPartOfexp: 0.7041s ✅
   └─ Found 0 reverse NBLASTexp matches
-SimilarMorphologyToNB: 0.4929s ✅
+SimilarMorphologyToNB: 0.5393s ✅
   └─ Found 15 NeuronBridge matches, returned 10
-SimilarMorphologyToNBexp: 0.6012s ✅
+SimilarMorphologyToNBexp: 0.6190s ✅
   └─ Found 15 NeuronBridge expression matches, returned 10
 ✅ All NBLAST similarity queries completed
 
 ================================================================================
 DATASET/TEMPLATE QUERIES
 ================================================================================
-PaintedDomains: 0.5284s ✅
+PaintedDomains: 0.6947s ✅
   └─ Found 0 painted domains
-DatasetImages: 0.5243s ✅
+DatasetImages: 0.5308s ✅
   └─ Found 0 images in dataset
-AllAlignedImages: 0.6489s ✅
+AllAlignedImages: 0.5270s ✅
   └─ Found 0 aligned images
-AlignedDatasets: 0.7499s ✅
+AlignedDatasets: 0.8399s ✅
   └─ Found 0 aligned datasets
-AllDatasets: 0.8442s ✅
+AllDatasets: 0.7994s ✅
   └─ Found 115 total datasets, returned 20
 ✅ All dataset/template queries completed
 
 ================================================================================
 PUBLICATION/TRANSGENE QUERIES
 ================================================================================
-TermsForPub: 0.6445s ✅
+TermsForPub: 0.4952s ✅
   └─ Found 0 terms for publication
-TransgeneExpressionHere: 0.6268s ✅
+TransgeneExpressionHere: 0.6242s ✅
   └─ Found 2339 transgene expressions, returned 10
 ✅ All publication/transgene queries completed
 
@@ -314,7 +314,7 @@ test_term_info_performance (src.test.term_info_queries_test.TermInfoQueriesTest)
 Performance test for specific term info queries. ... ok
 
 ----------------------------------------------------------------------
-Ran 1 test in 2.522s
+Ran 1 test in 2.573s
 
 OK
 VFBquery functions patched with caching support
@@ -330,9 +330,9 @@ DEBUG: Cache lookup result: True
 ==================================================
 Performance Test Results:
 ==================================================
-FBbt_00003748 query took: 1.2898 seconds
-VFB_00101567 query took: 1.2317 seconds
-Total time for both queries: 2.5215 seconds
+FBbt_00003748 query took: 1.2922 seconds
+VFB_00101567 query took: 1.2804 seconds
+Total time for both queries: 2.5726 seconds
 Performance Level: 🟡 Good (1.5-3 seconds)
 ==================================================
 Performance test completed successfully!
@@ -351,4 +351,4 @@ Track performance trends across commits:
 - [GitHub Actions History](https://github.com/VirtualFlyBrain/VFBquery/actions/workflows/performance-test.yml)
 
 ---
-*Last updated: 2025-11-19 12:07:12 UTC*
+*Last updated: 2025-11-19 12:16:14 UTC*