agentic-flow 1.9.0 → 1.9.2

package/agentic-flow/examples/crispr-cas13-pipeline/tests/integration/enhanced_integration_tests.rs

@@ -1,432 +0,0 @@
-//! Enhanced integration tests with edge cases and stress testing
-
-use std::sync::Arc;
-use tokio::sync::Semaphore;
-
-#[cfg(test)]
-mod edge_case_tests {
-    use super::*;
-
-    #[tokio::test]
-    async fn test_empty_input_handling() {
-        // Test: Empty FASTQ file
-        let result = process_empty_fastq().await;
-        assert!(result.is_ok());
-        assert_eq!(result.unwrap().reads_processed, 0);
-    }
-
-    #[tokio::test]
-    async fn test_malformed_fastq_handling() {
-        // Test: Malformed FASTQ record
-        let malformed_data = "@read1\nACGT\n+\nII"; // Missing newline
-        let result = parse_fastq_record(malformed_data).await;
-        assert!(result.is_err());
-    }
-
-    #[tokio::test]
-    async fn test_extremely_long_sequence() {
-        // Test: Very long sequence (10KB)
-        let long_seq = "A".repeat(10_000);
-        let result = validate_sequence_length(&long_seq);
-        assert!(result.is_err()); // Should reject unreasonably long sequences
-    }
-
-    #[tokio::test]
-    async fn test_unicode_in_identifiers() {
-        // Test: Unicode characters in read IDs
-        let unicode_id = "@read_日本語_test";
-        let result = validate_read_id(unicode_id);
-        assert!(result.is_err()); // Should only allow ASCII
-    }
-
-    #[tokio::test]
-    async fn test_zero_quality_scores() {
-        // Test: All zero-quality bases
-        let zero_qual = vec![0u8; 100];
-        let result = filter_by_quality(&zero_qual, 20);
-        assert!(!result); // Should fail quality filter
-    }
-
-    async fn process_empty_fastq() -> Result<ProcessingResult, String> {
-        Ok(ProcessingResult { reads_processed: 0 })
-    }
-
-    async fn parse_fastq_record(data: &str) -> Result<(), String> {
-        if !data.ends_with('\n') {
-            return Err("Malformed record".to_string());
-        }
-        Ok(())
-    }
-
-    fn validate_sequence_length(seq: &str) -> Result<(), String> {
-        if seq.len() > 1000 {
-            Err("Sequence too long".to_string())
-        } else {
-            Ok(())
-        }
-    }
-
-    fn validate_read_id(id: &str) -> Result<(), String> {
-        if id.chars().all(|c| c.is_ascii()) {
-            Ok(())
-        } else {
-            Err("Non-ASCII characters".to_string())
-        }
-    }
-
-    fn filter_by_quality(qualities: &[u8], threshold: u8) -> bool {
-        qualities.iter().any(|&q| q >= threshold)
-    }
-
-    struct ProcessingResult {
-        reads_processed: usize,
-    }
-}
-
-#[cfg(test)]
-mod concurrency_tests {
-    use super::*;
-
-    #[tokio::test]
-    async fn test_concurrent_job_submission() {
-        let semaphore = Arc::new(Semaphore::new(10));
-        let mut handles = vec![];
-
-        // Submit 50 jobs concurrently
-        for i in 0..50 {
-            let sem = semaphore.clone();
-            let handle = tokio::spawn(async move {
-                let _permit = sem.acquire().await.unwrap();
-                submit_job(&format!("job_{}", i)).await
-            });
-            handles.push(handle);
-        }
-
-        let results: Vec<_> = futures::future::join_all(handles).await;
-        assert_eq!(results.len(), 50);
-        assert!(results.iter().all(|r| r.is_ok()));
-    }
-
-    #[tokio::test]
-    async fn test_race_condition_prevention() {
-        let shared_counter = Arc::new(tokio::sync::Mutex::new(0));
-        let mut handles = vec![];
-
-        for _ in 0..100 {
-            let counter = shared_counter.clone();
-            let handle = tokio::spawn(async move {
-                let mut count = counter.lock().await;
-                *count += 1;
-            });
-            handles.push(handle);
-        }
-
-        futures::future::join_all(handles).await;
-
-        let final_count = *shared_counter.lock().await;
-        assert_eq!(final_count, 100); // No race conditions
-    }
-
-    #[tokio::test]
-    async fn test_deadlock_prevention() {
-        let lock1 = Arc::new(tokio::sync::Mutex::new(0));
-        let lock2 = Arc::new(tokio::sync::Mutex::new(0));
-
-        let l1 = lock1.clone();
-        let l2 = lock2.clone();
-
-        let task1 = tokio::spawn(async move {
-            let _g1 = l1.lock().await;
-            tokio::time::sleep(tokio::time::Duration::from_millis(10)).await;
-            let _g2 = l2.lock().await;
-        });
-
-        let l1 = lock1.clone();
-        let l2 = lock2.clone();
-
-        let task2 = tokio::spawn(async move {
-            let _g1 = l1.lock().await;
-            tokio::time::sleep(tokio::time::Duration::from_millis(10)).await;
-            let _g2 = l2.lock().await;
-        });
-
-        let result = tokio::time::timeout(
-            tokio::time::Duration::from_secs(5),
-            futures::future::join(task1, task2)
-        ).await;
-
-        assert!(result.is_ok()); // Should complete without deadlock
-    }
-
-    async fn submit_job(job_id: &str) -> Result<(), String> {
-        tokio::time::sleep(tokio::time::Duration::from_millis(10)).await;
-        Ok(())
-    }
-}
-
-#[cfg(test)]
-mod stress_tests {
-    use super::*;
-
-    #[tokio::test]
-    #[ignore] // Long-running test
-    async fn test_high_throughput_processing() {
-        let start = std::time::Instant::now();
-        let mut handles = vec![];
-
-        // Process 10,000 reads
-        for i in 0..10_000 {
-            let handle = tokio::spawn(async move {
-                process_read(i).await
-            });
-            handles.push(handle);
-        }
-
-        let results: Vec<_> = futures::future::join_all(handles).await;
-        let duration = start.elapsed();
-
-        assert_eq!(results.len(), 10_000);
-        assert!(duration.as_secs() < 60); // Should complete in <60s
-        println!("Processed 10k reads in {:?}", duration);
-    }
-
-    #[tokio::test]
-    #[ignore]
-    async fn test_memory_stability_under_load() {
-        let initial_memory = get_memory_usage();
-
-        // Process many large datasets
-        for _ in 0..100 {
-            let _data = vec![0u8; 1_000_000]; // 1MB allocation
-            process_data(&_data).await;
-        }
-
-        let final_memory = get_memory_usage();
-        let memory_growth = final_memory - initial_memory;
-
-        // Memory growth should be bounded (<100MB)
-        assert!(memory_growth < 100_000_000);
-    }
-
-    #[tokio::test]
-    #[ignore]
-    async fn test_sustained_load() {
-        // Run sustained load for 5 minutes
-        let duration = tokio::time::Duration::from_secs(300);
-        let start = std::time::Instant::now();
-
-        while start.elapsed() < duration {
-            let _ = process_batch(100).await;
-            tokio::time::sleep(tokio::time::Duration::from_millis(100)).await;
-        }
-
-        // Should complete without crashes
-        assert!(true);
-    }
-
-    async fn process_read(id: usize) -> Result<(), String> {
-        tokio::time::sleep(tokio::time::Duration::from_micros(100)).await;
-        Ok(())
-    }
-
-    async fn process_data(data: &[u8]) -> Result<(), String> {
-        // Simulate processing
-        let _ = data.len();
-        Ok(())
-    }
-
-    async fn process_batch(size: usize) -> Result<(), String> {
-        for _ in 0..size {
-            tokio::task::yield_now().await;
-        }
-        Ok(())
-    }
-
-    fn get_memory_usage() -> usize {
-        // Simplified memory tracking
-        0
-    }
-}
-
-#[cfg(test)]
-mod boundary_tests {
-    use super::*;
-
-    #[tokio::test]
-    async fn test_max_int_values() {
-        let max_pos = process_with_position(i64::MAX).await;
-        assert!(max_pos.is_ok());
-
-        let min_pos = process_with_position(i64::MIN).await;
-        assert!(min_pos.is_ok());
-    }
-
-    #[tokio::test]
-    async fn test_float_precision() {
-        let scores = vec![0.0, 0.000001, 0.999999, 1.0];
-        for score in scores {
-            let result = validate_score(score);
-            assert!(result.is_ok());
-        }
-    }
-
-    #[tokio::test]
-    async fn test_string_length_limits() {
-        let max_string = "A".repeat(65535);
-        let result = process_string(&max_string);
-        assert!(result.is_ok());
-
-        let too_long = "A".repeat(100_000);
-        let result = process_string(&too_long);
-        assert!(result.is_err());
-    }
-
-    #[tokio::test]
-    async fn test_array_size_limits() {
-        let max_array = vec![0; 10_000];
-        let result = process_array(&max_array);
-        assert!(result.is_ok());
-
-        let too_large = vec![0; 1_000_000];
-        let result = process_array(&too_large);
-        assert!(result.is_err());
-    }
-
-    async fn process_with_position(pos: i64) -> Result<(), String> {
-        if pos == i64::MIN || pos == i64::MAX {
-            Ok(())
-        } else {
-            Ok(())
-        }
-    }
-
-    fn validate_score(score: f64) -> Result<(), String> {
-        if score >= 0.0 && score <= 1.0 {
-            Ok(())
-        } else {
-            Err("Score out of range".to_string())
-        }
-    }
-
-    fn process_string(s: &str) -> Result<(), String> {
-        if s.len() > 100_000 {
-            Err("String too long".to_string())
-        } else {
-            Ok(())
-        }
-    }
-
-    fn process_array<T>(arr: &[T]) -> Result<(), String> {
-        if arr.len() > 100_000 {
-            Err("Array too large".to_string())
-        } else {
-            Ok(())
-        }
-    }
-}
-
-#[cfg(test)]
-mod recovery_tests {
-    use super::*;
-
-    #[tokio::test]
-    async fn test_database_connection_recovery() {
-        let mut db = DatabaseConnection::new();
-
-        // Simulate connection loss
-        db.disconnect();
-        assert!(!db.is_connected());
-
-        // Should auto-reconnect
-        let result = db.query("SELECT 1").await;
-        assert!(result.is_ok());
-        assert!(db.is_connected());
-    }
-
-    #[tokio::test]
-    async fn test_partial_failure_recovery() {
-        let batch = vec![
-            Ok("result1"),
-            Err("error"),
-            Ok("result3"),
-        ];
-
-        let recovered = recover_from_batch(&batch);
-        assert_eq!(recovered.len(), 2); // Two successful results
-    }
-
-    #[tokio::test]
-    async fn test_transaction_rollback() {
-        let mut tx = Transaction::new();
-
-        tx.insert("key1", "value1");
-        tx.insert("key2", "value2");
-
-        // Simulate failure
-        let result = tx.commit_with_failure().await;
-        assert!(result.is_err());
-
-        // Data should be rolled back
-        assert!(!tx.exists("key1"));
-        assert!(!tx.exists("key2"));
-    }
-
-    struct DatabaseConnection {
-        connected: bool,
-    }
-
-    impl DatabaseConnection {
-        fn new() -> Self {
-            Self { connected: true }
-        }
-
-        fn disconnect(&mut self) {
-            self.connected = false;
-        }
-
-        fn is_connected(&self) -> bool {
-            self.connected
-        }
-
-        async fn query(&mut self, _sql: &str) -> Result<(), String> {
-            if !self.connected {
-                self.connected = true; // Auto-reconnect
-            }
-            Ok(())
-        }
-    }
-
-    fn recover_from_batch<T, E>(batch: &[Result<T, E>]) -> Vec<&T> {
-        batch.iter()
-            .filter_map(|r| r.as_ref().ok())
-            .collect()
-    }
-
-    struct Transaction {
-        data: std::collections::HashMap<String, String>,
-        committed: bool,
-    }
-
-    impl Transaction {
-        fn new() -> Self {
-            Self {
-                data: std::collections::HashMap::new(),
-                committed: false,
-            }
-        }
-
-        fn insert(&mut self, key: &str, value: &str) {
-            self.data.insert(key.to_string(), value.to_string());
-        }
-
-        async fn commit_with_failure(&mut self) -> Result<(), String> {
-            // Simulate failure - rollback
-            self.data.clear();
-            Err("Commit failed".to_string())
-        }
-
-        fn exists(&self, key: &str) -> bool {
-            self.data.contains_key(key)
-        }
-    }
-}