Bisect done.

Bisect log follows.

# bad: [e2689a0f2068cfd300fd7f4d444d72571cfe5d48] UBUNTU: Ubuntu-3.8.0-26.38
# good: [680faeb696565a564b9b7a678fa042de4f5fbee9] UBUNTU: Ubuntu-3.8.0-23.34
git bisect start 'Ubuntu-3.8.0-26.38' 'Ubuntu-3.8.0-23.34'
# bad: [67dca26a087c23aabf8f4f92de630d3285551c87] benet: Wait f/w POST until 
timeout
git bisect bad 67dca26a087c23aabf8f4f92de630d3285551c87
# bad: [65b3745f82d86d6ba3efc19054e3cc2bde452b45] ixgbe: fix EICR write in 
ixgbe_msix_other
git bisect bad 65b3745f82d86d6ba3efc19054e3cc2bde452b45
# good: [5f17a84fb89bccf83ad1d07ae3caa12b9322cecc] tracing: Reset 
ftrace_graph_filter_enabled if count is zero
git bisect good 5f17a84fb89bccf83ad1d07ae3caa12b9322cecc
# good: [e5dc414e4d888330436fcd4bea3f6348276dbba9] swap: redirty page if page 
write fails on swap file
git bisect good e5dc414e4d888330436fcd4bea3f6348276dbba9
# bad: [ef40ce18151e6a78cc7c084558ea8044566c54b7] inotify: invalid mask should 
return a error number but not set it
git bisect bad ef40ce18151e6a78cc7c084558ea8044566c54b7
# bad: [07053b6237d7a1983d80fb0d3839e9889244dc33] ACPI / thermal: do not always 
return THERMAL_TREND_RAISING for active trip points
git bisect bad 07053b6237d7a1983d80fb0d3839e9889244dc33
# bad: [6d22382d7148a132fb7b4c461cb2940df4f0c77e] drivers/rtc/rtc-cmos.c: don't 
disable hpet emulation on suspend
git bisect bad 6d22382d7148a132fb7b4c461cb2940df4f0c77e
# good: [2ef4473b0027df0e7558557feb83da2c3e1826d0] mm: swap: mark swap pages 
writeback before queueing for direct IO
git bisect good 2ef4473b0027df0e7558557feb83da2c3e1826d0
# first bad commit: [6d22382d7148a132fb7b4c461cb2940df4f0c77e] 
drivers/rtc/rtc-cmos.c: don't disable hpet emulation on suspend


Last git bisect throwed this:


6d22382d7148a132fb7b4c461cb2940df4f0c77e is the first bad commit
commit 6d22382d7148a132fb7b4c461cb2940df4f0c77e
Author: Derek Basehore <[email protected]>
Date:   Mon Apr 29 16:20:23 2013 -0700

    drivers/rtc/rtc-cmos.c: don't disable hpet emulation on suspend
    
    BugLink: http://bugs.launchpad.net/bugs/1178361
    
    commit e005715efaf674660ae59af83b13822567e3a758 upstream.
    
    There's a bug where rtc alarms are ignored after the rtc cmos suspends
    but before the system finishes suspend.  Since hpet emulation is
    disabled and it still handles the interrupts, a wake event is never
    registered which is done from the rtc layer.
    
    This patch reverts commit d1b2efa83fbf ("rtc: disable hpet emulation on
    suspend") which disabled hpet emulation.  To fix the problem mentioned
    in that commit, hpet_rtc_timer_init() is called directly on resume.
    
    Signed-off-by: Derek Basehore <[email protected]>
    Cc: Maxim Levitsky <[email protected]>
    Cc: "H. Peter Anvin" <[email protected]>
    Cc: Thomas Gleixner <[email protected]>
    Cc: Ingo Molnar <[email protected]>
    Cc: "Rafael J. Wysocki" <[email protected]>
    Signed-off-by: Andrew Morton <[email protected]>
    Signed-off-by: Linus Torvalds <[email protected]>
    Signed-off-by: Greg Kroah-Hartman <[email protected]>
    Signed-off-by: Steve Conklin <[email protected]>

:040000 040000 3e84b9874d08e64109a8e7155b0b0734fbf250e3
08ae4a77586575391919e292a9730d649d5251ac M      drivers

Seems to be the commit I suspected on bug opening

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https://bugs.launchpad.net/bugs/1197871

Title:
  [Gigabyte GA-MA78GPM-DS2H] ACPI wakeup fails if HPET enabled in BIOS

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