[Question]: Startup failed

[Developer-cy]

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Question
The final step, initializing seekdb during startup, caused the startup to fail. How can this be resolved?

symptom：
Failed to parse response: EOF while parsing a value at line 1 column 0
code:
[2025-11-24T09:50:52Z INFO mine_kb::services::python_subprocess] ✅ Python subprocess started successfully
[2025-11-24T09:50:52Z INFO mine_kb::services::python_subprocess] 🔧 Initializing SeekDB: path=/home/cypei/.local/share/com.mine-kb.app/mine_kb.db, name=mine_kb
[SeekDB Bridge] SeekDB Bridge started, waiting for commands...
[SeekDB Bridge] Initializing SeekDB: path=/home/cypei/.local/share/com.mine-kb.app/mine_kb.db, db=mine_kb
async thread exited.
[2025-11-24T09:51:02Z INFO mine_kb::services::python_subprocess] 🛑 Shutting down Python subprocess...
[2025-11-24T09:51:02Z INFO mine_kb::services::python_subprocess] Python subprocess exited with status: signal: 11 (SIGSEGV) (core dumped)
[2025-11-24T09:51:02Z INFO mine_kb::services::python_subprocess] ✅ Python subprocess shutdown complete
[2025-11-24T09:51:02Z ERROR mine_kb] ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━
[2025-11-24T09:51:02Z ERROR mine_kb] ❌ 应用状态初始化失败
[2025-11-24T09:51:02Z ERROR mine_kb] ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━

Environment
ubuntu 22.4.5

• OS Version and CPU Arch(uname -a):

• OB Version(LD_LIBRARY_PATH=../lib:$LD_LIBRARY_PATH ./observer -V):

• Hardware resource(cpu core/memory size/disk hardware):

[hnwyllmm]

Can you provide more environment information?
MacOS Orb or Windows + WSL2 or Windows + docker?
Anything else can helping us to reproduce the scenario is welcome.

[kejun]

Based on the logs, the problem is as follows:

Error Chain

1. Python subprocess starts successfully.
2. SeekDB initialization begins (calling seekdb.open() or seekdb.connect()).
3. The Python process crashes (SIGSEGV, signal 11).
4. The Rust side attempts to read the response, but the process has exited, receiving EOF.
5. JSON parsing fails: Failed to parse response: EOF while parsing a value at line 1 column 0.

Root Cause

SIGSEGV (Segmentation Fault) is typically caused by the following:

1. Crash in SeekDB Library's C/C++ Extension (Most Likely)

• SeekDB is based on OceanBase Lite and includes a C/C++ extension.
• The crash occurs during seekdb.open() or seekdb.connect().
• Possible reasons:
  • Library version incompatibility with the system.
  • Missing or mismatched version of dependent system libraries (e.g., libc, libstdc++, libgcc).
  • Corrupted library file.

2. System Library Dependency Issues

• Ubuntu 22.04.5 might be missing necessary runtime libraries.
• SeekDB requires a specific glibc version or C++ runtime.

3. Database File Corruption

• The database directory or file is corrupted, leading to a crash during initialization.

4. Memory Issues

• Insufficient memory or memory access violation.

Diagnostic Steps

1. Check Python and SeekDB versions:

python3 --version
python3 -c "import seekdb; print(seekdb.__version__)"

1. Check system library dependencies:

ldd $(python3 -c "import seekdb; import os; print(os.path.dirname(seekdb.__file__))" | grep -o '/.*\.so')

1. Check database files:

ls -la /home/cypei/.local/share/com.mine-kb.app/mine_kb.db
file /home/cypei/.local/share/com.mine-kb.app/mine_kb.db

1. Directly test SeekDB:

python3 -c "
import seekdb
try:
    seekdb.open('/home/cypei/.local/share/com.mine-kb.app/mine_kb.db')
    print('✅ seekdb.open() succeeded')
    conn = seekdb.connect('test')
    print('✅ seekdb.connect() succeeded')
except Exception as e:
    print(f'❌ Error: {e}')
    import traceback
    traceback.print_exc()
"

Solution 1: Reinstall SeekDB (Recommended)

pip3 uninstall seekdb -y
pip3 install seekdb==0.0.1.dev4 -i https://pypi.tuna.tsinghua.edu.cn/simple

Solution 2: Install System Dependency Libraries

sudo apt-get update
sudo apt-get install -y libc6 libstdc++6 libgcc-s1

Solution 3: Delete and Rebuild the Database

rm -rf /home/cypei/.local/share/com.mine-kb.app/mine_kb.db
# Then restart the application

Solution 4: Use gdb for Debugging (Advanced)

gdb python3
(gdb) run -c "import seekdb; seekdb.open('/path/to/db')"
# Check the stack trace upon crash

If the problem persists, add more detailed error handling and logging in seekdb_bridge.py:

def handle_init(self, params: Dict[str, Any]):
    """Initialize SeekDB connection"""
    try:
        db_path = params.get("db_path", "./seekdb.db")
        db_name = params.get("db_name", "mine_kb")
        
        self.log(f"Initializing SeekDB: path={db_path}, db={db_name}")
        
        # Add detailed error handling
        try:
            self.log("Calling seekdb.open()...")
            seekdb.open(db_path)
            self.log("✅ seekdb.open() succeeded")
        except Exception as e:
            self.log(f"❌ seekdb.open() failed: {e}")
            self.log(f"Traceback: {traceback.format_exc()}")
            raise
        
        # ... rest of the code

Suggested Troubleshooting Order

1. First, execute Solution 1 (Reinstall SeekDB).
2. If it still fails, execute Solution 2 (Install System Libraries).
3. If it still fails, execute Solution 3 (Delete Database).
4. Finally, use Solution 4 (gdb debugging) to get detailed crash information.