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During the testing of matter-pi-gpio-commander, it was discovered that chip-tool encountered trouble commissioning the commander snap via the Thread feature. This comment also confirms that the Thread commission error might originate from chip-tool, considering that the Python Matter Server in Home Assistant Libs can commission the commander snap. Here is the log from chip-tool:
$ sudo chip-tool pairing ble-thread 110 hex:0e080000000000010000000300000c35060004001fffe00208d2f97acbb3662c9b0708fda12b93c2ba31520510fc408c0ff8d558aa52617ba63a435417030f4f70656e5468726561642d303235380102025804101ef3e9682c1d382dee42aec736a1c23b0c0402a0f7f8 20202021 3840
[1701099866.706623][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Using KVS config file: /mnt/chip_tool_kvs
[1701099866.706841][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Using KVS config file: /mnt/chip_kvs
[1701099866.706845][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Attempt to re-initialize with KVS config file: /mnt/chip_kvs
[1701099866.707927][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Using KVS config file: /mnt/chip_factory.ini
[1701099866.707952][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Using KVS config file: /mnt/chip_config.ini
[1701099866.707960][82231:82231] CHIP:DL: ChipLinuxStorage::Init: Using KVS config file: /mnt/chip_counters.ini
[1701099866.708015][82231:82231] CHIP:DL: writing settings to file (/mnt/chip_counters.ini-p2fLEu)
[1701099866.708102][82231:82231] CHIP:DL: renamed tmp file to file (/mnt/chip_counters.ini)
[1701099866.708107][82231:82231] CHIP:DL: NVS set: chip-counters/reboot-count = 27 (0x1B)
[1701099866.708324][82231:82231] CHIP:DL: Got Ethernet interface: eno1
[1701099866.708471][82231:82231] CHIP:DL: Found the primary Ethernet interface:eno1
[1701099866.708685][82231:82231] CHIP:DL: Failed to get WiFi interface
[1701099866.708687][82231:82231] CHIP:DL: Failed to reset WiFi statistic counts
[1701099866.708695][82231:82231] CHIP:IN: UDP::Init bind&listen port=0
[1701099866.708707][82231:82231] CHIP:IN: UDP::Init bound to port=42743
[1701099866.708708][82231:82231] CHIP:IN: UDP::Init bind&listen port=0
[1701099866.708715][82231:82231] CHIP:IN: UDP::Init bound to port=51228
[1701099866.708717][82231:82231] CHIP:IN: BLEBase::Init - setting/overriding transport
[1701099866.708718][82231:82231] CHIP:IN: TransportMgr initialized
[1701099866.708723][82231:82231] CHIP:FP: Initializing FabricTable from persistent storage
[1701099866.708750][82231:82231] CHIP:TS: Last Known Good Time: 2023-10-14T01:16:48
[1701099866.709037][82231:82231] CHIP:FP: Fabric index 0x1 was retrieved from storage. Compressed FabricId 0xE6CACD9207E74AF0, FabricId 0x0000000000000001, NodeId 0x000000000001B669, VendorId 0xFFF1
[1701099866.709241][82231:82231] CHIP:ZCL: Using ZAP configuration...
[1701099866.711916][82231:82231] CHIP:CTL: System State Initialized...
[1701099866.711946][82231:82231] CHIP:CTL: Setting attestation nonce to random value
[1701099866.711951][82231:82231] CHIP:CTL: Setting CSR nonce to random value
[1701099866.711959][82231:82231] CHIP:IN: UDP::Init bind&listen port=5550
[1701099866.711966][82231:82231] CHIP:IN: UDP::Init bound to port=5550
[1701099866.711968][82231:82231] CHIP:IN: UDP::Init bind&listen port=5550
[1701099866.711974][82231:82231] CHIP:IN: UDP::Init bound to port=5550
[1701099866.711976][82231:82231] CHIP:IN: TransportMgr initialized
[1701099866.712045][82231:82259] CHIP:DL: CHIP task running
[1701099866.712060][82231:82259] CHIP:DL: HandlePlatformSpecificBLEEvent 32784
[1701099866.712140][82231:82259] CHIP:CTL: Setting attestation nonce to random value
[1701099866.712159][82231:82259] CHIP:CTL: Setting CSR nonce to random value
[1701099866.712329][82231:82259] CHIP:CTL: Generating NOC
[1701099866.712507][82231:82259] CHIP:FP: Validating NOC chain
[1701099866.712800][82231:82259] CHIP:FP: NOC chain validation successful
[1701099866.712830][82231:82259] CHIP:FP: Updated fabric at index: 0x1, Node ID: 0x000000000001B669
[1701099866.712833][82231:82259] CHIP:TS: Last Known Good Time: 2023-10-14T01:16:48
[1701099866.712834][82231:82259] CHIP:TS: New proposed Last Known Good Time: 2021-01-01T00:00:00
[1701099866.712835][82231:82259] CHIP:TS: Retaining current Last Known Good Time
[1701099866.713070][82231:82259] CHIP:FP: Metadata for Fabric 0x1 persisted to storage.
[1701099866.713226][82231:82259] CHIP:TS: Committing Last Known Good Time to storage: 2023-10-14T01:16:48
[1701099866.713366][82231:82259] CHIP:CTL: Joined the fabric at index 1. Fabric ID is 0x0000000000000001 (Compressed Fabric ID: E6CACD9207E74AF0)
[1701099866.713370][82231:82259] CHIP:IN: UDP::Init bind&listen port=5550
[1701099866.713382][82231:82259] CHIP:IN: UDP::Init bound to port=5550
[1701099866.713383][82231:82259] CHIP:IN: UDP::Init bind&listen port=5550
[1701099866.713390][82231:82259] CHIP:IN: UDP::Init bound to port=5550
[1701099866.713392][82231:82259] CHIP:IN: TransportMgr initialized
[1701099866.714959][82231:82259] CHIP:CTL: Setting thread operational dataset from parameters
[1701099866.714962][82231:82259] CHIP:CTL: Setting attestation nonce to random value
[1701099866.714967][82231:82259] CHIP:CTL: Setting CSR nonce to random value
[1701099866.714970][82231:82259] CHIP:CTL: Commission called for node ID 0x000000000000006E
[1701099866.715954][82231:82258] CHIP:DL: TRACE: Bus acquired for name C-4137
[1701099866.717564][82231:82259] CHIP:DL: PlatformBlueZInit init success
[1701099866.719161][82231:82258] CHIP:BLE: BLE removing known devices.
[1701099866.719617][82231:82258] CHIP:BLE: BLE initiating scan.
[1701099866.867459][82231:82258] CHIP:BLE: Device 5A:C8:D3:99:E0:C4 does not look like a CHIP device.
...
[1701099876.783735][82231:82258] CHIP:BLE: Device E0:58:7C:A2:D7:11 does not look like a CHIP device.
[1701099876.794460][82231:82259] CHIP:DIS: Closing all BLE connections
[1701099876.794516][82231:82259] CHIP:TOO: Pairing Failure: src/platform/Linux/bluez/ChipDeviceScanner.cpp:173: CHIP Error 0x00000032: Timeout
[1701099876.794546][82231:82259] CHIP:BLE: BLE scan error: src/platform/Linux/bluez/ChipDeviceScanner.cpp:173: CHIP Error 0x00000032: Timeout
[1701099876.798313][82231:82259] CHIP:BLE: Scan complete. No matching device found.
[1701099876.798514][82231:82231] CHIP:CTL: Shutting down the commissioner
[1701099876.798595][82231:82231] CHIP:CTL: Shutting down the controller
[1701099876.798636][82231:82231] CHIP:IN: Expiring all sessions for fabric 0x1!!
[1701099876.798651][82231:82231] CHIP:FP: Forgetting fabric 0x1
[1701099876.798676][82231:82231] CHIP:TS: Pending Last Known Good Time: 2023-10-14T01:16:48
[1701099876.798817][82231:82231] CHIP:TS: Previous Last Known Good Time: 2023-10-14T01:16:48
[1701099876.798828][82231:82231] CHIP:TS: Reverted Last Known Good Time to previous value
[1701099876.798867][82231:82231] CHIP:CTL: Shutting down the commissioner
[1701099876.798910][82231:82231] CHIP:CTL: Shutting down the controller
[1701099876.798922][82231:82231] CHIP:CTL: Shutting down the System State, this will teardown the CHIP Stack
[1701099876.799119][82231:82231] CHIP:DMG: All ReadHandler-s are clean, clear GlobalDirtySet
[1701099876.799177][82231:82231] CHIP:FP: Shutting down FabricTable
[1701099876.799192][82231:82231] CHIP:TS: Pending Last Known Good Time: 2023-10-14T01:16:48
[1701099876.799294][82231:82231] CHIP:TS: Previous Last Known Good Time: 2023-10-14T01:16:48
[1701099876.799307][82231:82231] CHIP:TS: Reverted Last Known Good Time to previous value
[1701099876.799589][82231:82231] CHIP:DL: writing settings to file (/mnt/chip_counters.ini-35CMQo)
[1701099876.799997][82231:82231] CHIP:DL: renamed tmp file to file (/mnt/chip_counters.ini)
[1701099876.800030][82231:82231] CHIP:DL: NVS set: chip-counters/total-operational-hours = 0 (0x0)
[1701099876.800043][82231:82231] CHIP:DL: Inet Layer shutdown
[1701099876.800051][82231:82231] CHIP:DL: BLE shutdown
[1701099876.802640][82231:82231] CHIP:DL: System Layer shutdown
[1701099876.803121][82231:82231] CHIP:TOO: Run command failure: src/platform/Linux/bluez/ChipDeviceScanner.cpp:173: CHIP Error 0x00000032: Timeout
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