I tried using an omap-gpio as an interrupt in xenomai and got this message when 
registering it:

[58531.105521] I-pipe: Detected illicit call from head domain 'Xenomai'
[58531.105521]         into a regular Linux service
[58531.105538] CPU: 0 PID: 9816 Comm: StartTask Tainted: G           O 
3.12-1-am5726 #1 Debian 3.12.27-0.1RR6
[58531.105558] [<c0016410>] (unwind_backtrace+0x0/0xf8) from [<c001286c>] 
(show_stack+0x10/0x14)
[58531.105577] [<c001286c>] (show_stack+0x10/0x14) from [<c0440784>] 
(dump_stack+0x70/0x8c)
[58531.105594] [<c0440784>] (dump_stack+0x70/0x8c) from [<c001a55c>] 
(ipipe_test_and_stall_root+0x8/0x8c)
[58531.105611] [<c001a55c>] (ipipe_test_and_stall_root+0x8/0x8c) from 
[<c04449c4>] (_raw_spin_lock_irqsave+0xc/0x4c)
[58531.105626] [<c04449c4>] (_raw_spin_lock_irqsave+0xc/0x4c) from [<c0016238>] 
(unwind_frame+0x2c4/0x49c)
[58531.105641] [<c0016238>] (unwind_frame+0x2c4/0x49c) from [<c0016490>] 
(unwind_backtrace+0x80/0xf8)
[58531.105657] [<c0016490>] (unwind_backtrace+0x80/0xf8) from [<c001286c>] 
(show_stack+0x10/0x14)
[58531.105673] [<c001286c>] (show_stack+0x10/0x14) from [<c0440784>] 
(dump_stack+0x70/0x8c)
[58531.105689] [<c0440784>] (dump_stack+0x70/0x8c) from [<c0040060>] 
(warn_slowpath_common+0x68/0x8c)
[58531.105705] [<c0040060>] (warn_slowpath_common+0x68/0x8c) from [<c00400a0>] 
(warn_slowpath_null+0x1c/0x24)
[58531.105721] [<c00400a0>] (warn_slowpath_null+0x1c/0x24) from [<c001a308>] 
(ipipe_set_irq_affinity+0x98/0xd8)
[58531.105783] [<c001a308>] (ipipe_set_irq_affinity+0x98/0xd8) from 
[<bf0a689c>] (xnintr_attach+0x2c/0x39c [xeno_nucleus])
[58531.105907] [<bf0a689c>] (xnintr_attach+0x2c/0x39c [xeno_nucleus]) from 
[<bf1510cc>] (rt_intr_create+0x258/0x4cc [xeno_native])
[58531.106009] [<bf1510cc>] (rt_intr_create+0x258/0x4cc [xeno_native]) from 
[<bf132de8>] (__rt_intr_create+0x9c/0x124 [xeno_native])
[58531.106124] [<bf132de8>] (__rt_intr_create+0x9c/0x124 [xeno_native]) from 
[<bf0c2658>] (hisyscall_event+0x184/0x34c [xeno_nucleus])
[58531.106198] [<bf0c2658>] (hisyscall_event+0x184/0x34c [xeno_nucleus]) from 
[<c00afb9c>] (ipipe_syscall_hook+0x68/0xa8)
[58531.106216] [<c00afb9c>] (ipipe_syscall_hook+0x68/0xa8) from [<c00ae698>] 
(__ipipe_notify_syscall+0x170/0x408)
[58531.106233] [<c00ae698>] (__ipipe_notify_syscall+0x170/0x408) from 
[<c000eefc>] (pipeline_syscall+0x8/0x24)
[58531.106336] [<bf0a689c>] (xnintr_attach+0x2c/0x39c [xeno_nucleus]) from 
[<bf1510cc>] (rt_intr_create+0x258/0x4cc [xeno_native])
[58531.106434] [<bf1510cc>] (rt_intr_create+0x258/0x4cc [xeno_native]) from 
[<bf132de8>] (__rt_intr_create+0x9c/0x124 [xeno_native])
[58531.106538] [<bf132de8>] (__rt_intr_create+0x9c/0x124 [xeno_native]) from 
[<bf0c2658>] (hisyscall_event+0x184/0x34c [xeno_nucleus])
[58531.106609] [<bf0c2658>] (hisyscall_event+0x184/0x34c [xeno_nucleus]) from 
[<c00afb9c>] (ipipe_syscall_hook+0x68/0xa8)
[58531.106626] [<c00afb9c>] (ipipe_syscall_hook+0x68/0xa8) from [<c00ae698>] 
(__ipipe_notify_syscall+0x170/0x408)
[58531.106641] [<c00ae698>] (__ipipe_notify_syscall+0x170/0x408) from 
[<c000eefc>] (pipeline_syscall+0x8/0x24)
[58531.106652] ---[ end trace dff1d3990fff1b03 ]---
[58531.106718] ------------[ cut here ]------------
[58531.106729] WARNING: CPU: 0 PID: 9816 at 
/tmp/linux/linux-3.12.27.rr1/arch/arm/kernel/ipipe.c:158 
ipipe_set_irq_affinity+0x98/0xd8(
)
[58531.106738] Modules linked in: 8021q garp stp mrp llc l2tp_eth l2tp_netlink 
l2tp_core ip_gre ip_tunnel gre macvlan ti_pru_eth rcksa
pi_layer2(O) iptable_nat nf_conntrack_ipv4 nf_defrag_ipv4 nf_nat_ipv4 nf_nat 
nf_conntrack dummy xeno_posix xeno_rtdm xeno_native xeno_
nucleus max6369_wdt iptable_filter ip_tables x_tables xhci_hcd dwc3 
ahci_platform omap_aes phy_omap_usb2 phy_omap_pipe3 phy_omap_contr
ol dwc3_omap lm75 [last unloaded: xfrm_user]
[58531.106980] CPU: 0 PID: 9816 Comm: StartTask Tainted: G           O 
3.12-1-am5726 #1 Debian 3.12.27-0.1RR6
[58531.106990] [<c0016410>] (unwind_backtrace+0x0/0xf8) from [<c001286c>] 
(show_stack+0x10/0x14)
[58531.106998] [<c001286c>] (show_stack+0x10/0x14) from [<c0440784>] 
(dump_stack+0x70/0x8c)
[58531.107007] [<c0440784>] (dump_stack+0x70/0x8c) from [<c0040060>] 
(warn_slowpath_common+0x68/0x8c)
[58531.107016] [<c0040060>] (warn_slowpath_common+0x68/0x8c) from [<c00400a0>] 
(warn_slowpath_null+0x1c/0x24)
[58531.107025] [<c00400a0>] (warn_slowpath_null+0x1c/0x24) from [<c001a308>] 
(ipipe_set_irq_affinity+0x98/0xd8)
[58531.107034] [<c001a308>] (ipipe_set_irq_affinity+0x98/0xd8) from 
[<bf0a689c>] (xnintr_attach+0x2c/0x39c [xeno_nucleus])

I saw ipipe patches in the gpio-omap.c but maybe something is still
missing.

Any ideas?

Of course it may be that our code is used to running on an older xenomai
where it first called request_irq and then xenomai took over the irq
handling.  I wish the person that wrote that code still worked here to
explain why that was done.

If I don't use the gpio irq but instead use an irq that is one level
lower, then I get no such error message (although the pin isn't setup
properly either then so it doesn't actually work either).

-- 
Len Sorensen

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