Following cases also fail with the same bisect commit:
Piglit:
spec_EGL_1.4_eglCreatePbufferSurface_and_then_glClear
Webglc:
conformance/textures/texture-attachment-formats.html
Ogles1conform:
apfunc.c
bclear.c
bcolor.c
blend.c
bufobj.c
clip.c
colramp.c
copytex.c
fogexp.c
foglin.c
linerast.c
logicop.c
l_ac.c
l_al.c
l_am.c
l_ap.c
l_as.c
l_dl.c
l_dm.c
l_dmn.c
l_dmp.c
l_em.c
l_se.c
l_sed.c
l_sen.c
l_sep.c
l_sl.c
l_sm.c
l_sn.c
l_sp.c
mask.c
miplin.c
mipsel.c
mstack.c
multitex.c
mustpass.c
packpix.c
pntrast.c
pntsprt.c
polycull.c
scissor.c
spclear.c
spfunc.c
spop.c
texcombine.c
texdecal.c
texedge.c
texpalet.c
trirast.c
userclip.c
vorder.c
xform.c
xformmix.c
xformvp.c
xformw.c
zbclear.c
zbfunc.c

Following Ogles2conform cases also fail with the same bisect commit.
ES2-CTS.gtf.GL.read_format.read_format
ES2-CTS.gtf.GL2ExtensionTests.compressed_etc1_rgb8_texture.compressed_etc1_rgb8_texture
ES2-CTS.gtf.GL2ExtensionTests.egl_image.egl_image
ES2-CTS.gtf.GL2ExtensionTests.packed_depth_stencil.packed_depth_stencil
ES2-CTS.gtf.GL2FixedTests.blend.blend
ES2-CTS.gtf.GL2FixedTests.buffer_color.buffer_color
ES2-CTS.gtf.GL2FixedTests.buffer_objects.buffer_objects
ES2-CTS.gtf.GL2FixedTests.color_ramp.color_ramp
ES2-CTS.gtf.GL2FixedTests.copy_texture.copy_texture
ES2-CTS.gtf.GL2FixedTests.depth_buffer_functions.depth_buffer_functions
ES2-CTS.gtf.GL2FixedTests.mipmaps_interpolation.mipmaps_interpolation
ES2-CTS.gtf.GL2FixedTests.mipmaps_selection.mipmaps_selection
ES2-CTS.gtf.GL2FixedTests.point_rasterization.point_rasterization
ES2-CTS.gtf.GL2FixedTests.point_sprites.point_sprites
ES2-CTS.gtf.GL2FixedTests.scissor.scissor
ES2-CTS.gtf.GL2FixedTests.texture_edge_clamp.texture_edge_clamp
ES2-CTS.gtf.GL2FixedTests.transform_viewport.transform_viewport
ES2-CTS.gtf.GL2FixedTests.triangle_rasterization.triangle_rasterization
ES2-CTS.gtf.GL2FixedTests.user_clip_planes.user_clip_planes
ES2-CTS.gtf.GL2FixedTests.vertex_order.vertex_order
ES2-CTS.gtf.GL2Tests.framebuffer_objects.framebuffer_objects

1040 Ogles3conform case fail with the same bisect commit. 
This commit impacts 1121 cases. 1040 Ogles3conform, 2 Piglit, 21 Ogles2conform, 1 webglc, 57 Ogles1conform

I believe I found and fixed the bug.  Please try with this branch:

http://cgit.freedesktop.org/~jekstrand/mesa/log/?h=fix/tiled-window-system

(In reply to Jason Ekstrand from comment #3)
> I believe I found and fixed the bug.  Please try with this branch:
> 
> http://cgit.freedesktop.org/~jekstrand/mesa/log/?h=fix/tiled-window-system

Test this branch, it still fails.
EGL_Y_INVERTED_NOK: TRUE
Probe color at (50,50)
  Expected: 0.500000 0.000000 0.500000 1.000000
  Observed: 0.400000 0.000000 0.000000 1.000000
PIGLIT: {"result": "fail" }

(In reply to lu hua from comment #4)
> (In reply to Jason Ekstrand from comment #3)
> > I believe I found and fixed the bug.  Please try with this branch:
> > 
> > http://cgit.freedesktop.org/~jekstrand/mesa/log/?h=fix/tiled-window-system
> 
> Test this branch, it still fails.
> EGL_Y_INVERTED_NOK: TRUE
> Probe color at (50,50)
>   Expected: 0.500000 0.000000 0.500000 1.000000
>   Observed: 0.400000 0.000000 0.000000 1.000000
> PIGLIT: {"result": "fail" }

Could you retry, maybe something went wrong? I just confirmed that this branch fixes the issue for me.

the mentioned commit (90bd943f2abafd5e3ea29ab8397fd4682ef74170) causes my installation of the game "Europa Universalis 4" to segfault

could this be related? (issue also not fixed with aforementioned branch)

Reproduce steps:
-------------------------
1. start eu4
2. start single player game

backtrace
#0  0xf743f5d6 in ytiled_to_linear_faster () from /usr/lib32/dri/i965_dri.so
#1  0xf74405bb in tiled_to_linear () from /usr/lib32/dri/i965_dri.so
#2  0xf743c161 in intel_gettexsubimage_tiled_memcpy () from /usr/lib32/dri/i965_dri.so
#3  0xf743c2ec in intel_get_tex_image () from /usr/lib32/dri/i965_dri.so
#4  0xf71a16db in _mesa_get_texture_image () from /usr/lib32/dri/i965_dri.so
#5  0xf71a1867 in _mesa_GetnTexImageARB () from /usr/lib32/dri/i965_dri.so
#6  0xf71a18e1 in _mesa_GetTexImage () from /usr/lib32/dri/i965_dri.so
#7  0x09213699 in GfxTransparentAt(TextureGFX*, int, int, unsigned char*, int) ()
#8  0x08f7fdbe in CMaskedSpriteType::TransparenteAt(CVector2<short> const&, unsigned short) const ()
#9  0x0919d213 in C2dVisibleObject::IntersectDistance(CVector2<float>, CMatrix4<float> const&, CVector3<float>, CVector3<float>&, bool) ()
#10 0x09181ccf in CGraphics::Render2dTree(CMatrix4<float> const&, CGraphicalObject*, SScissorRectangle const*) ()
#11 0x09181d6d in CGraphics::Render2dTree(CMatrix4<float> const&, CGraphicalObject*, SScissorRectangle const*) ()
#12 0x09181a11 in CGraphics::Render2dObjectsToScreen(bool) ()
#13 0x08e98630 in CFrontEnd::Render() ()
#14 0x08e963b7 in CFrontEnd::Idle(bool) ()
#15 0x090f5b1e in CApplication::UpdateOneFrame(bool) ()
#16 0x090f5c7c in CApplication::Run() ()
#17 0x089e7fdd in main ()

This issue happens on SNB/IVB/HSW/BDW. BSW, BYT and ILK don't have this issue.

(In reply to Sergio Perez from comment #6)
> the mentioned commit (90bd943f2abafd5e3ea29ab8397fd4682ef74170) causes my
> installation of the game "Europa Universalis 4" to segfault
> 
> could this be related? (issue also not fixed with aforementioned branch)
> 
> Reproduce steps:
> -------------------------
> 1. start eu4
> 2. start single player game
> 
> backtrace
> #0  0xf743f5d6 in ytiled_to_linear_faster () from /usr/lib32/dri/i965_dri.so
> #1  0xf74405bb in tiled_to_linear () from /usr/lib32/dri/i965_dri.so
> #2  0xf743c161 in intel_gettexsubimage_tiled_memcpy () from
> /usr/lib32/dri/i965_dri.so
> #3  0xf743c2ec in intel_get_tex_image () from /usr/lib32/dri/i965_dri.so
> #4  0xf71a16db in _mesa_get_texture_image () from /usr/lib32/dri/i965_dri.so
> #5  0xf71a1867 in _mesa_GetnTexImageARB () from /usr/lib32/dri/i965_dri.so
> #6  0xf71a18e1 in _mesa_GetTexImage () from /usr/lib32/dri/i965_dri.so
> #7  0x09213699 in GfxTransparentAt(TextureGFX*, int, int, unsigned char*,
> int) ()
> #8  0x08f7fdbe in CMaskedSpriteType::TransparenteAt(CVector2<short> const&,
> unsigned short) const ()
> #9  0x0919d213 in C2dVisibleObject::IntersectDistance(CVector2<float>,
> CMatrix4<float> const&, CVector3<float>, CVector3<float>&, bool) ()
> #10 0x09181ccf in CGraphics::Render2dTree(CMatrix4<float> const&,
> CGraphicalObject*, SScissorRectangle const*) ()
> #11 0x09181d6d in CGraphics::Render2dTree(CMatrix4<float> const&,
> CGraphicalObject*, SScissorRectangle const*) ()
> #12 0x09181a11 in CGraphics::Render2dObjectsToScreen(bool) ()
> #13 0x08e98630 in CFrontEnd::Render() ()
> #14 0x08e963b7 in CFrontEnd::Idle(bool) ()
> #15 0x090f5b1e in CApplication::UpdateOneFrame(bool) ()
> #16 0x090f5c7c in CApplication::Run() ()
> #17 0x089e7fdd in main ()

This is related, but probably a different issue.  Please open another bug.

If you could, it would be helpful if you could take an apitrace (http://apitrace.github.io/) of the game up until it crashes, upload it somewhere, and provide that on the bug.

(In reply to Tapani Pälli from comment #5)
> (In reply to lu hua from comment #4)
> > (In reply to Jason Ekstrand from comment #3)
> > > I believe I found and fixed the bug.  Please try with this branch:
> > > 
> > > http://cgit.freedesktop.org/~jekstrand/mesa/log/?h=fix/tiled-window-system
> > 
> > Test this branch, it still fails.
> > EGL_Y_INVERTED_NOK: TRUE
> > Probe color at (50,50)
> >   Expected: 0.500000 0.000000 0.500000 1.000000
> >   Observed: 0.400000 0.000000 0.000000 1.000000
> > PIGLIT: {"result": "fail" }
> 
> Could you retry, maybe something went wrong? I just confirmed that this
> branch fixes the issue for me.

I re-build  and test it on HSW, it still fail.
output:
EGL_Y_INVERTED_NOK: TRUE
Probe color at (50,50)
  Expected: 0.500000 0.000000 0.500000 1.000000
  Observed: 0.400000 0.000000 0.000000 1.000000
PIGLIT: {"result": "fail" }

Test commit: 765cfe9a90b6d592b232d1647d65d50c983bea2f
# git branch
* master
# cat .git/config
[core]
        repositoryformatversion = 0
        filemode = true
        bare = false
        logallrefupdates = true
[remote "origin"]
        url = git://people.freedesktop.org/~jekstrand/mesa
        fetch = +refs/heads/*:refs/remotes/origin/*
[branch "master"]
        remote = origin
        merge = refs/heads/master

(In reply to lu hua from comment #9)
> (In reply to Tapani Pälli from comment #5)
> > (In reply to lu hua from comment #4)
> > > (In reply to Jason Ekstrand from comment #3)
> > > > I believe I found and fixed the bug.  Please try with this branch:
> > > > 
> > > > http://cgit.freedesktop.org/~jekstrand/mesa/log/?h=fix/tiled-window-system
> > > 
> > > Test this branch, it still fails.
> > > EGL_Y_INVERTED_NOK: TRUE
> > > Probe color at (50,50)
> > >   Expected: 0.500000 0.000000 0.500000 1.000000
> > >   Observed: 0.400000 0.000000 0.000000 1.000000
> > > PIGLIT: {"result": "fail" }
> > 
> > Could you retry, maybe something went wrong? I just confirmed that this
> > branch fixes the issue for me.
> 
> I re-build  and test it on HSW, it still fail.
> output:
> EGL_Y_INVERTED_NOK: TRUE
> Probe color at (50,50)
>   Expected: 0.500000 0.000000 0.500000 1.000000
>   Observed: 0.400000 0.000000 0.000000 1.000000
> PIGLIT: {"result": "fail" }
> 
> Test commit: 765cfe9a90b6d592b232d1647d65d50c983bea2f
> # git branch
> * master
> # cat .git/config
> [core]
>         repositoryformatversion = 0
>         filemode = true
>         bare = false
>         logallrefupdates = true
> [remote "origin"]
>         url = git://people.freedesktop.org/~jekstrand/mesa
>         fetch = +refs/heads/*:refs/remotes/origin/*
> [branch "master"]
>         remote = origin
>         merge = refs/heads/master

It looks to me like you are in a wrong branch, you should switch to 'fix/tiled-window-system' branch, hash of HEAD there is "725316b5550449e78789b6b2e0b5e6dccb39ac8f".

Created attachment 112961 [details]
ogles1conform test log


> It looks to me like you are in a wrong branch, you should switch to
> 'fix/tiled-window-system' branch, hash of HEAD there is
> "725316b5550449e78789b6b2e0b5e6dccb39ac8f".

Sorry, incorrect branch.
Test commit 725316b5550449e78789b6b2e0b5e6dccb39ac8f.

bin/egl-nok-texture-from-pixmap -auto is pass
output:
EGL_Y_INVERTED_NOK: TRUE
PIGLIT: {"result": "pass" }

Run full ogles1conform, some cases still fail.

> Run full ogles1conform, some cases still fail.

Yep, this was my impression also, there's 'something' in the copy that does not work for some cases, let's have another bug for those so that we get this fix integrated, otherwise people will get vertically flipped screenshots (often taken with glReadPixels) from their apps.

The first two patches I posted to fix this bug are now upstream.  I have one more patch that fixes the rest of the conformance tests.  I force-pushed my fix/tiled-window-system branch with the new patch.  The exact commit is a8178b2f09ed48d084dc91ac5df9923f2eb16712.  Please verify that it fixes it for you.

The fix is now in master, please verify that it fixes both the piglit tests and the conformance issues.

Most of the fail have been fixed, except one Ogles3conform and one webglc case.
Ogles3conform case ES3-CTS.gtf.GL3Tests.rgb8_rgba8.rgb8_rgba8_rgb  and welglc case conformance/textures/texture-attachment-formats.html.

run ./glcts --deqp-case=ES3-CTS.gtf.GL3Tests.rgb8_rgba8.rgb8_rgba8_rgb
output:
dEQP Core GL-CTS-2.0 (0x0052484b) starting..
  target implementation = 'X11'

Test case 'ES3-CTS.gtf.GL3Tests.rgb8_rgba8.rgb8_rgba8_rgb'..
INFO:rgb8_rgba8_rgb:Alpha is expected to be one (255) for all the pixels. However, different alpha values were found.
ERROR:rgb8_rgba8_rgb:Gradient test detected insufficient framebuffer color precision or faulty alpha values
  Fail (Fail)

DONE!

Test run totals:
  Passed:        0/1 (0.00%)
  Failed:        1/1 (100.00%)
  Not supported: 0/1 (0.00%)
  Warnings:      0/1 (0.00%)

Ok, I just posted one more patch that I think will fix the last of the problems.  It can again be found on the fix/tiled-window-system branc of my freedesktop.org repository.  It's SHA1 f41bc72a432c1949693880259f8528250758f88b.  Please let me know if it fixes the rest of the regressions.

(In reply to Jason Ekstrand from comment #16)
> Ok, I just posted one more patch that I think will fix the last of the
> problems.  It can again be found on the fix/tiled-window-system branc of my
> freedesktop.org repository.  It's SHA1
> f41bc72a432c1949693880259f8528250758f88b.  Please let me know if it fixes
> the rest of the regressions.

Test on commit f41bc72a432c1949693880259f8528250758f88b, they work well.

(In reply to lu hua from comment #17)
> (In reply to Jason Ekstrand from comment #16)
> > Ok, I just posted one more patch that I think will fix the last of the
> > problems.  It can again be found on the fix/tiled-window-system branc of my
> > freedesktop.org repository.  It's SHA1
> > f41bc72a432c1949693880259f8528250758f88b.  Please let me know if it fixes
> > the rest of the regressions.
> 
> Test on commit f41bc72a432c1949693880259f8528250758f88b, they work well.

Thanks for all your testing!  The commit has been pushed to master, so I'm closing the bug.

Verified.Fixed.