This happens on the 2.8 beta branch of the Apalis iMX6 BSP, I can reproduce this error on the Apalis Evalboard. I have an Atheros WiFi module in the mini-pci slot, but I can’t bring it up, it won’t even show up. Part of the PEX switch is also missing.
Using Linux 4.9
root@apalis-imx6:~# uname -a
Linux apalis-imx6 4.9.84-2.8.2+gb2a7f2f #1 SMP Sat Mar 31 02:44:15 UTC 2018 armv7l GNU/Linux
root@apalis-imx6:~# lspci
00:00.0 PCI bridge: Synopsys, Inc. Device abcd (rev 01)
01:00.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab)
root@apalis-imx6:~# dmesg | grep -i pci
[ 0.294791] PCI: CLS 0 bytes, default 64
[ 0.315117] OF: PCI: host bridge /soc/pcie@0x01000000 ranges:
[ 0.315171] OF: PCI: IO 0x01f80000..0x01f8ffff -> 0x00000000
[ 0.315203] OF: PCI: MEM 0x01000000..0x01efffff -> 0x01000000
[ 0.370682] imx6q-pcie 1ffc000.pcie: Link: Gen2 disabled
[ 0.370717] imx6q-pcie 1ffc000.pcie: Link up, Gen1
[ 0.370957] imx6q-pcie 1ffc000.pcie: PCI host bridge to bus 0000:00
[ 0.370990] pci_bus 0000:00: root bus resource [bus 00-ff]
[ 0.371017] pci_bus 0000:00: root bus resource [io 0x0000-0xffff]
[ 0.371042] pci_bus 0000:00: root bus resource [mem 0x01000000-0x01efffff]
[ 0.371097] pci 0000:00:00.0: [16c3:abcd] type 01 class 0x060400
[ 0.371120] pci 0000:00:00.0: reg 0x10: [mem 0x00000000-0x000fffff]
[ 0.371136] pci 0000:00:00.0: reg 0x38: [mem 0x00000000-0x0000ffff pref]
[ 0.371199] pci 0000:00:00.0: supports D1
[ 0.371208] pci 0000:00:00.0: PME# supported from D0 D1 D3hot D3cold
[ 0.371479] PCI: bus0: Fast back to back transfers disabled
[ 0.371703] pci 0000:01:00.0: [10b5:8605] type 01 class 0x060400
[ 0.371796] pci 0000:01:00.0: reg 0x10: [mem 0x00000000-0x00003fff]
[ 0.372383] pci 0000:01:00.0: supports D1 D2
[ 0.372391] pci 0000:01:00.0: PME# supported from D0 D1 D2 D3hot D3cold
[ 0.402768] PCI: bus1: Fast back to back transfers disabled
[ 0.402812] pci 0000:01:00.0: bridge configuration invalid ([bus 00-00]), reconfiguring
[ 0.403175] pci_bus 0000:02: busn_res: can not insert [bus 02-01] under [bus 01] (conflicts with (null) [bus 01])
[ 0.403458] PCI: bus2: Fast back to back transfers enabled
[ 0.403489] pci_bus 0000:02: busn_res: [bus 02-01] end is updated to 02
[ 0.403498] pci_bus 0000:02: busn_res: can not insert [bus 02] under [bus 01] (conflicts with (null) [bus 01])
[ 0.403518] pci_bus 0000:02: [bus 02] partially hidden behind bridge 0000:01 [bus 01]
[ 0.403565] pci 0000:00:00.0: bridge has subordinate 01 but max busn 02
[ 0.403808] pci 0000:00:00.0: BAR 0: assigned [mem 0x01000000-0x010fffff]
[ 0.403844] pci 0000:00:00.0: BAR 8: assigned [mem 0x01100000-0x011fffff]
[ 0.403876] pci 0000:00:00.0: BAR 6: assigned [mem 0x01200000-0x0120ffff pref]
[ 0.403917] pci 0000:01:00.0: BAR 0: assigned [mem 0x01100000-0x01103fff]
[ 0.403963] pci 0000:01:00.0: PCI bridge to [bus 02]
[ 0.404057] pci 0000:00:00.0: PCI bridge to [bus 01]
[ 0.404083] pci 0000:00:00.0: bridge window [mem 0x01100000-0x011fffff]
[ 0.404354] pcieport 0000:00:00.0: Signaling PME through PCIe PME interrupt
[ 0.404386] pci 0000:01:00.0: Signaling PME through PCIe PME interrupt
[ 0.404417] pcie_pme 0000:00:00.0:pcie001: service driver pcie_pme loaded
[ 0.404578] aer 0000:00:00.0:pcie002: service driver aer loaded
[ 0.404781] pcieport 0000:01:00.0: enabling device (0140 -> 0142)
[ 1.956491] ehci-pci: EHCI PCI platform driver
[ 8.337812] vgaarb: this pci device is not a vga device
[ 8.494775] vgaarb: this pci device is not a vga device
root@apalis-imx6:~# lspci -v
00:00.0 PCI bridge: Synopsys, Inc. Device abcd (rev 01) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 320
Memory at 01000000 (32-bit, non-prefetchable) [size=1M]
Bus: primary=00, secondary=01, subordinate=01, sec-latency=0
I/O behind bridge: None
Memory behind bridge: 01100000-011fffff [size=1M]
Prefetchable memory behind bridge: None
[virtual] Expansion ROM at 01200000 [disabled] [size=64K]
Capabilities: [40] Power Management version 3
Capabilities: [50] MSI: Enable+ Count=1/1 Maskable+ 64bit+
Capabilities: [70] Express Root Port (Slot-), MSI 00
Capabilities: [100] Advanced Error Reporting
Capabilities: [140] Virtual Channel
Kernel driver in use: pcieport
01:00.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 321
Memory at 01100000 (32-bit, non-prefetchable) [size=16K]
Bus: primary=01, secondary=02, subordinate=02, sec-latency=0
I/O behind bridge: None
Memory behind bridge: None
Prefetchable memory behind bridge: None
Capabilities: [40] Power Management version 3
Capabilities: [48] MSI: Enable+ Count=1/4 Maskable+ 64bit+
Capabilities: [68] Express Upstream Port, MSI 00
Capabilities: [a4] Subsystem: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch
Capabilities: [100] Device Serial Number ab-86-02-10-b5-df-0e-00
Capabilities: [fb4] Advanced Error Reporting
Capabilities: [138] Power Budgeting <?>
Capabilities: [148] Virtual Channel
Capabilities: [950] Vendor Specific Information: ID=0001 Rev=0 Len=028 <?>
Kernel driver in use: pcieport
Using Linux 4.1
root@apalis-imx6:~# uname -a
Linux apalis-imx6 4.1.44-2.7.4+gb1555bf #1 SMP Wed Oct 4 22:39:51 UTC 2017 armv7l GNU/Linux
root@apalis-imx6:~# lspci
00:00.0 PCI bridge: Synopsys, Inc. Device abcd (rev 01)
01:00.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab)
02:01.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab)
02:02.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab)
02:03.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab)
04:00.0 Network controller: Qualcomm Atheros AR93xx Wireless Network Adapter (rev 01)
root@apalis-imx6:~# dmesg | grep -i pci
[ 0.195274] PCI: CLS 0 bytes, default 64
[ 1.621788] ehci-pci: EHCI PCI platform driver
[ 2.879537] 1ffc000.pcie supply pcie-bus not found, using dummy regulator
[ 2.946274] imx6q-pcie 1ffc000.pcie: Configuration forces GEN1
[ 2.957597] imx6q-pcie 1ffc000.pcie: PCI host bridge to bus 0000:00
[ 2.967884] pci_bus 0000:00: root bus resource [io 0x1000-0xffff]
[ 2.978019] pci_bus 0000:00: root bus resource [mem 0x01000000-0x01efffff]
[ 2.988786] pci_bus 0000:00: root bus resource [bus 00-ff]
[ 2.998088] pci 0000:00:00.0: [16c3:abcd] type 01 class 0x060400
[ 2.998113] pci 0000:00:00.0: reg 0x10: [mem 0x00000000-0x000fffff]
[ 2.998130] pci 0000:00:00.0: reg 0x38: [mem 0x00000000-0x0000ffff pref]
[ 2.998186] pci 0000:00:00.0: supports D1
[ 2.998196] pci 0000:00:00.0: PME# supported from D0 D1 D3hot D3cold
[ 2.998405] PCI: bus0: Fast back to back transfers disabled
[ 3.007958] pci 0000:01:00.0: [10b5:8605] type 01 class 0x060400
[ 3.058048] pci 0000:01:00.0: reg 0x10: [mem 0x00000000-0x00003fff]
[ 3.058512] pci 0000:01:00.0: supports D1 D2
[ 3.058523] pci 0000:01:00.0: PME# supported from D0 D1 D2 D3hot D3cold
[ 3.072760] PCI: bus1: Fast back to back transfers disabled
[ 3.082189] pci 0000:01:00.0: bridge configuration invalid ([bus 00-00]), reconfiguring
[ 3.094517] pci 0000:02:01.0: [10b5:8605] type 01 class 0x060400
[ 3.145050] pci 0000:02:01.0: supports D1 D2
[ 3.145060] pci 0000:02:01.0: PME# supported from D0 D1 D2 D3hot D3cold
[ 3.145375] pci 0000:02:02.0: [10b5:8605] type 01 class 0x060400
[ 3.195900] pci 0000:02:02.0: supports D1 D2
[ 3.195910] pci 0000:02:02.0: PME# supported from D0 D1 D2 D3hot D3cold
[ 3.196228] pci 0000:02:03.0: [10b5:8605] type 01 class 0x060400
[ 3.246752] pci 0000:02:03.0: supports D1 D2
[ 3.246762] pci 0000:02:03.0: PME# supported from D0 D1 D2 D3hot D3cold
[ 3.247313] PCI: bus2: Fast back to back transfers disabled
[ 3.256713] pci 0000:02:01.0: bridge configuration invalid ([bus 00-00]), reconfiguring
[ 3.268622] pci 0000:02:02.0: bridge configuration invalid ([bus 00-00]), reconfiguring
[ 3.280483] pci 0000:02:03.0: bridge configuration invalid ([bus 00-00]), reconfiguring
[ 3.308065] PCI: bus3: Fast back to back transfers enabled
[ 3.317280] pci_bus 0000:03: busn_res: [bus 03-ff] end is updated to 03
[ 3.317631] pci 0000:04:00.0: [168c:0030] type 00 class 0x028000
[ 3.317749] pci 0000:04:00.0: reg 0x10: [mem 0x00000000-0x0001ffff 64bit]
[ 3.317941] pci 0000:04:00.0: reg 0x30: [mem 0x00000000-0x0000ffff pref]
[ 3.318255] pci 0000:04:00.0: supports D1
[ 3.318265] pci 0000:04:00.0: PME# supported from D0 D1 D3hot
[ 3.318662] PCI: bus4: Fast back to back transfers disabled
[ 3.327897] pci_bus 0000:04: busn_res: [bus 04-ff] end is updated to 04
[ 3.328172] PCI: bus5: Fast back to back transfers enabled
[ 3.337279] pci_bus 0000:05: busn_res: [bus 05-ff] end is updated to 05
[ 3.337306] pci_bus 0000:02: busn_res: [bus 02-ff] end is updated to 05
[ 3.337331] pci_bus 0000:01: busn_res: [bus 01-ff] end is updated to 05
[ 3.337788] pci 0000:00:00.0: BAR 0: assigned [mem 0x01000000-0x010fffff]
[ 3.348248] pci 0000:00:00.0: BAR 8: assigned [mem 0x01100000-0x014fffff]
[ 3.358637] pci 0000:00:00.0: BAR 9: assigned [mem 0x01500000-0x016fffff pref]
[ 3.369399] pci 0000:00:00.0: BAR 6: assigned [mem 0x01700000-0x0170ffff pref]
[ 3.380105] pci 0000:00:00.0: BAR 7: assigned [io 0x1000-0x1fff]
[ 3.389640] pci 0000:01:00.0: BAR 8: assigned [mem 0x01100000-0x013fffff]
[ 3.399842] pci 0000:01:00.0: BAR 9: assigned [mem 0x01500000-0x016fffff 64bit pref]
[ 3.410951] pci 0000:01:00.0: BAR 0: assigned [mem 0x01400000-0x01403fff]
[ 3.421085] pci 0000:01:00.0: BAR 7: assigned [io 0x1000-0x1fff]
[ 3.430435] pci 0000:02:01.0: BAR 8: assigned [mem 0x01100000-0x012fffff]
[ 3.440509] pci 0000:02:01.0: BAR 9: assigned [mem 0x01500000-0x016fffff 64bit pref]
[ 3.451558] pci 0000:02:02.0: BAR 8: assigned [mem 0x01300000-0x013fffff]
[ 3.461617] pci 0000:02:01.0: BAR 7: assigned [io 0x1000-0x1fff]
[ 3.470966] pci 0000:02:01.0: PCI bridge to [bus 03]
[ 3.479174] pci 0000:02:01.0: bridge window [io 0x1000-0x1fff]
[ 3.488550] pci 0000:02:01.0: bridge window [mem 0x01100000-0x012fffff]
[ 3.498610] pci 0000:02:01.0: bridge window [mem 0x01500000-0x016fffff 64bit pref]
[ 3.509641] pci 0000:04:00.0: BAR 0: assigned [mem 0x01300000-0x0131ffff 64bit]
[ 3.520224] pci 0000:04:00.0: BAR 6: assigned [mem 0x01320000-0x0132ffff pref]
[ 3.530630] pci 0000:02:02.0: PCI bridge to [bus 04]
[ 3.538753] pci 0000:02:02.0: bridge window [mem 0x01300000-0x013fffff]
[ 3.548730] pci 0000:02:03.0: PCI bridge to [bus 05]
[ 3.556887] pci 0000:01:00.0: PCI bridge to [bus 02-05]
[ 3.565221] pci 0000:01:00.0: bridge window [io 0x1000-0x1fff]
[ 3.574453] pci 0000:01:00.0: bridge window [mem 0x01100000-0x013fffff]
[ 3.584361] pci 0000:01:00.0: bridge window [mem 0x01500000-0x016fffff 64bit pref]
[ 3.595236] pci 0000:00:00.0: PCI bridge to [bus 01-05]
[ 3.603552] pci 0000:00:00.0: bridge window [io 0x1000-0x1fff]
[ 3.612745] pci 0000:00:00.0: bridge window [mem 0x01100000-0x014fffff]
[ 3.622647] pci 0000:00:00.0: bridge window [mem 0x01500000-0x016fffff pref]
[ 3.633203] pcieport 0000:00:00.0: Signaling PME through PCIe PME interrupt
[ 3.643269] pci 0000:01:00.0: Signaling PME through PCIe PME interrupt
[ 3.652885] pci 0000:02:01.0: Signaling PME through PCIe PME interrupt
[ 3.662408] pci 0000:02:02.0: Signaling PME through PCIe PME interrupt
[ 3.671870] pci 0000:04:00.0: Signaling PME through PCIe PME interrupt
[ 3.681345] pci 0000:02:03.0: Signaling PME through PCIe PME interrupt
[ 3.690759] pcie_pme 0000:00:00.0:pcie01: service driver pcie_pme loaded
[ 3.690995] aer 0000:00:00.0:pcie02: service driver aer loaded
[ 3.691214] pcieport 0000:01:00.0: enabling device (0140 -> 0143)
[ 3.700960] pcieport 0000:02:01.0: enabling device (0140 -> 0143)
[ 3.710731] pcieport 0000:02:02.0: enabling device (0140 -> 0142)
root@apalis-imx6:~# lspci -v
00:00.0 PCI bridge: Synopsys, Inc. Device abcd (rev 01) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 324
Memory at 01000000 (32-bit, non-prefetchable) [size=1M]
Bus: primary=00, secondary=01, subordinate=05, sec-latency=0
I/O behind bridge: 00001000-00001fff
Memory behind bridge: 01100000-014fffff
Prefetchable memory behind bridge: 01500000-016fffff
[virtual] Expansion ROM at 01700000 [disabled] [size=64K]
Capabilities: [40] Power Management version 3
Capabilities: [50] MSI: Enable+ Count=1/1 Maskable+ 64bit+
Capabilities: [70] Express Root Port (Slot-), MSI 00
Capabilities: [100] Advanced Error Reporting
Capabilities: [140] Virtual Channel
Kernel driver in use: pcieport
01:00.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 325
Memory at 01400000 (32-bit, non-prefetchable) [size=16K]
Bus: primary=01, secondary=02, subordinate=05, sec-latency=0
I/O behind bridge: 00001000-00001fff
Memory behind bridge: 01100000-013fffff
Prefetchable memory behind bridge: 0000000001500000-00000000016fffff
Capabilities: [40] Power Management version 3
Capabilities: [48] MSI: Enable+ Count=1/4 Maskable+ 64bit+
Capabilities: [68] Express Upstream Port, MSI 00
Capabilities: [a4] Subsystem: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch
Capabilities: [100] Device Serial Number ab-86-02-10-b5-df-0e-00
Capabilities: [fb4] Advanced Error Reporting
Capabilities: [138] Power Budgeting <?>
Capabilities: [148] Virtual Channel
Capabilities: [950] Vendor Specific Information: ID=0001 Rev=0 Len=028 <?>
Kernel driver in use: pcieport
02:01.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 326
Bus: primary=02, secondary=03, subordinate=03, sec-latency=0
I/O behind bridge: 00001000-00001fff
Memory behind bridge: 01100000-012fffff
Prefetchable memory behind bridge: 0000000001500000-00000000016fffff
Capabilities: [40] Power Management version 3
Capabilities: [48] MSI: Enable+ Count=1/4 Maskable+ 64bit+
Capabilities: [68] Express Downstream Port (Slot+), MSI 00
Capabilities: [a4] Subsystem: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch
Capabilities: [100] Device Serial Number ab-86-02-10-b5-df-0e-00
Capabilities: [fb4] Advanced Error Reporting
Capabilities: [148] Virtual Channel
Capabilities: [520] Access Control Services
Capabilities: [950] Vendor Specific Information: ID=0001 Rev=0 Len=028 <?>
Kernel driver in use: pcieport
02:02.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 327
Bus: primary=02, secondary=04, subordinate=04, sec-latency=0
Memory behind bridge: 01300000-013fffff
Capabilities: [40] Power Management version 3
Capabilities: [48] MSI: Enable+ Count=1/4 Maskable+ 64bit+
Capabilities: [68] Express Downstream Port (Slot+), MSI 00
Capabilities: [a4] Subsystem: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch
Capabilities: [100] Device Serial Number ab-86-02-10-b5-df-0e-00
Capabilities: [fb4] Advanced Error Reporting
Capabilities: [148] Virtual Channel
Capabilities: [520] Access Control Services
Capabilities: [950] Vendor Specific Information: ID=0001 Rev=0 Len=028 <?>
Kernel driver in use: pcieport
02:03.0 PCI bridge: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch (rev ab) (prog-if 00 [Normal decode])
Flags: bus master, fast devsel, latency 0, IRQ 328
Bus: primary=02, secondary=05, subordinate=05, sec-latency=0
Capabilities: [40] Power Management version 3
Capabilities: [48] MSI: Enable+ Count=1/4 Maskable+ 64bit+
Capabilities: [68] Express Downstream Port (Slot+), MSI 00
Capabilities: [a4] Subsystem: PLX Technology, Inc. PEX 8605 PCI Express 4-port Gen2 Switch
Capabilities: [100] Device Serial Number ab-86-02-10-b5-df-0e-00
Capabilities: [fb4] Advanced Error Reporting
Capabilities: [148] Virtual Channel
Capabilities: [520] Access Control Services
Capabilities: [950] Vendor Specific Information: ID=0001 Rev=0 Len=028 <?>
Kernel driver in use: pcieport
04:00.0 Network controller: Qualcomm Atheros AR93xx Wireless Network Adapter (rev 01)
Subsystem: Qualcomm Atheros AR93xx Wireless Network Adapter
Flags: bus master, fast devsel, latency 0, IRQ 358
Memory at 01300000 (64-bit, non-prefetchable) [size=128K]
[virtual] Expansion ROM at 01320000 [disabled] [size=64K]
Capabilities: [40] Power Management version 3
Capabilities: [50] MSI: Enable- Count=1/4 Maskable+ 64bit+
Capabilities: [70] Express Endpoint, MSI 00
Capabilities: [100] Advanced Error Reporting
Capabilities: [140] Virtual Channel
Capabilities: [300] Device Serial Number 00-00-00-00-00-00-00-00
Kernel driver in use: ath9k
Kernel modules: ath9k