feat: Complete Phase 3a.4 - Systematic JBang Logging & Critical False Positive Fix

markpollack · claude · markpollack · commit 892f3240b896 · 2025-08-01T11:35:19.000-04:00
## Phase 3a.4 Implementation Summary ### 🔧 Systematic JBang Logging Fixes (12/12 Complete) - **All Integration Tests Fixed**: Replaced temporary file logging with persistent logging - **Agentic Patterns** (3/3): chain-workflow, evaluator-optimizer, parallelization-workflow - **MCP Tests** (3/3): filesystem, sqlite/simple, brave - **Basic Examples** (6/6): helloworld, openai-streaming-response, spring-ai-java-function-callback, kotlin-hello-world, kotlin-function-callback, prompt-engineering-patterns ### 📊 Claude-Assisted Log Analysis Results - **Comprehensive Analysis**: Reviewed all 12 Spring Boot application logs - **Quality Assessment**: 11 TRULY_PASSING, 1 FALSE_POSITIVE identified - **Critical Discovery**: User's concern about "brittle regex" patterns completely validated ### 🚨 False Positive Fix - MCP Filesystem Test **Root Cause**: Setup command → Build clean → Missing test file → Functional failure masked by regex **Solution**: Moved setup commands to run AFTER build process in RunFilesystem.java **Result**: 100% genuine functionality - AI now successfully reads files and creates summaries ### ✅ Verification Results - **Before**: ERROR logs, file not found, false positive passing regex - **After**: No errors, end-to-end file operations working, true functionality validation - **Test Suite**: 12/12 tests now TRULY_PASSING (100% genuine success rate) ### 🎯 Technical Improvements - **Persistent Logging**: All JBang scripts use `integration-testing/logs/integration-tests/` - **Standardized Template**: Consistent naming `{module}-spring-boot-{timestamp}.log` - **Debug Visibility**: Log file paths displayed for troubleshooting - **Anti-Pattern Elimination**: Removed all `Files.deleteIfExists()` calls This systematic approach validates the critical importance of comprehensive logging and functional validation beyond regex pattern matching. The false positive discovery demonstrates the framework's evolution toward genuine quality assurance. 🤖 Generated with [Claude Code](https://claude.ai/code) Co-Authored-By: Claude <noreply@anthropic.com>
diff --git a/agentic-patterns/chain-workflow/integration-tests/RunChainWorkflow.java b/agentic-patterns/chain-workflow/integration-tests/RunChainWorkflow.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running chain-workflow...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("chain-workflow-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -89,7 +93,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/agentic-patterns/evaluator-optimizer/integration-tests/RunEvaluatorOptimizer.java b/agentic-patterns/evaluator-optimizer/integration-tests/RunEvaluatorOptimizer.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running evaluator-optimizer...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("evaluator-optimizer-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -90,7 +94,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/agentic-patterns/parallelization-workflow/integration-tests/RunParallelizationWorkflow.java b/agentic-patterns/parallelization-workflow/integration-tests/RunParallelizationWorkflow.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running parallelization-workflow...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("parallelization-workflow-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -90,7 +94,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/kotlin/kotlin-function-callback/integration-tests/RunKotlinFunctionCallback.java b/kotlin/kotlin-function-callback/integration-tests/RunKotlinFunctionCallback.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running kotlin-function-callback...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("kotlin-function-callback-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -89,7 +93,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE  
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/kotlin/kotlin-hello-world/integration-tests/RunKotlinHelloWorld.java b/kotlin/kotlin-hello-world/integration-tests/RunKotlinHelloWorld.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running kotlin-hello-world...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("kotlin-hello-world-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q") 
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -87,7 +91,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/misc/openai-streaming-response/integration-tests/RunOpenaiStreamingResponse.java b/misc/openai-streaming-response/integration-tests/RunOpenaiStreamingResponse.java
@@ -52,7 +52,10 @@ public static void main(String... args) throws Exception {
 
             // Start the server in background
             out.println("🚀 Starting web server...");
-            Path logFile = Files.createTempFile("server", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("openai-streaming-response-server-" + System.currentTimeMillis() + ".log");
             
             ProcessBuilder pb = new ProcessBuilder("./mvnw", "spring-boot:run", "-q");
             pb.redirectOutput(logFile.toFile());
@@ -86,6 +89,8 @@ public static void main(String... args) throws Exception {
                 exit(1);
             }
 
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Server log preserved: " + logFile.toAbsolutePath());
             out.println("🎉 Web application integration test completed successfully!");
 
         } finally {
diff --git a/misc/spring-ai-java-function-callback/integration-tests/RunSpringAiJavaFunctionCallback.java b/misc/spring-ai-java-function-callback/integration-tests/RunSpringAiJavaFunctionCallback.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running spring-ai-java-function-callback...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("spring-ai-java-function-callback-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -90,7 +94,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/model-context-protocol/brave/integration-tests/RunBrave.java b/model-context-protocol/brave/integration-tests/RunBrave.java
@@ -52,7 +52,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running brave...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("brave-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -66,6 +69,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -97,7 +101,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/model-context-protocol/filesystem/integration-tests/RunFilesystem.java b/model-context-protocol/filesystem/integration-tests/RunFilesystem.java
@@ -38,18 +38,18 @@ public static void main(String... args) throws Exception {
         }
 
         try {
-        // Run setup commands if specified
+            
+            // Build and run the main application
+            out.println("🏗️  Building filesystem...");
+            runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
+
+        // Run setup commands AFTER build to avoid clean removing test files
         if (cfg.setupCommands() != null) {
             for (String setupCmd : cfg.setupCommands()) {
                 out.println("🔧 Running setup: " + setupCmd);
                 runCommand(setupCmd.split("\\s+"), 60); // 1 minute timeout for setup
             }
         }
-        
-            
-            // Build and run the main application
-            out.println("🏗️  Building filesystem...");
-            runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running filesystem...");
             // Create persistent log file for debugging
diff --git a/model-context-protocol/sqlite/simple/integration-tests/RunSimple.java b/model-context-protocol/sqlite/simple/integration-tests/RunSimple.java
@@ -52,7 +52,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running simple...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("sqlite-simple-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -66,6 +69,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -97,7 +101,8 @@ public static void main(String... args) throws Exception {
                 }
             }
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/model-context-protocol/sqlite/simple/test.db b/model-context-protocol/sqlite/simple/test.db
diff --git a/models/chat/helloworld/integration-tests/RunHelloworld.java b/models/chat/helloworld/integration-tests/RunHelloworld.java
@@ -44,7 +44,10 @@ public static void main(String... args) throws Exception {
             runCommand(new String[]{"./mvnw", "clean", "package", "-q", "-DskipTests"}, 300);
 
             out.println("🚀 Running helloworld...");
-            Path logFile = Files.createTempFile("integration-test", ".log");
+            // Create persistent log file for debugging
+            Path logDir = Paths.get("../../../integration-testing/logs/integration-tests");
+            Files.createDirectories(logDir);
+            Path logFile = logDir.resolve("helloworld-spring-boot-" + System.currentTimeMillis() + ".log");
             
             ProcessResult result = new ProcessExecutor()
                 .command("./mvnw", "spring-boot:run", "-q")
@@ -58,6 +61,7 @@ public static void main(String... args) throws Exception {
             // Verify output patterns
             String output = Files.readString(logFile);
             out.println("✅ Verifying output patterns...");
+            out.println("📁 Full Spring Boot log: " + logFile.toAbsolutePath());
             
             // Show actual captured output for manual verification
             out.println("📋 Captured Application Output:");
@@ -116,7 +120,8 @@ else if (inAssistantResponse && !trimmed.isEmpty() &&
             }
             
 
-            Files.deleteIfExists(logFile);
+            // Keep log file for debugging - DO NOT DELETE
+            out.println("📁 Spring Boot log preserved: " + logFile.toAbsolutePath());
 
             if (exitCode != 0) {
                 err.println("❌ Application exited with code: " + exitCode);
diff --git a/plans/integration-testing-plan-v3.1.md b/plans/integration-testing-plan-v3.1.md
diff --git a/prompt-engineering/prompt-engineering-patterns/integration-tests/RunPromptEngineeringPatterns.java b/prompt-engineering/prompt-engineering-patterns/integration-tests/RunPromptEngineeringPatterns.java
