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running autot_title with setbgoutputdimensions leads to seg fault #1931

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doutriaux1 opened this Issue Apr 18, 2016 · 16 comments

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doutriaux1 commented Apr 18, 2016

doutriaux1@maryam:[/git/uvcdat]:[fix_Autot*]:[2139]> git diff
diff --git a/testing/vcs/test_vcs_autot_axis_titles.py b/testing/vcs/test_vcs_autot_axis_titles.py
index 8dfacdb..afd64de 100644
--- a/testing/vcs/test_vcs_autot_axis_titles.py
+++ b/testing/vcs/test_vcs_autot_axis_titles.py
@@ -32,7 +32,7 @@ f = cdms2.open(vcs.sample_data + "/" + testConfig[plot][0])
 s = f(testConfig[plot][1])

 x = vcs.init(bg=bg, geometry=(xSize, ySize))
-x.setbgoutputdimensions(xSize,ySize)
+x.setantialiasing(0)

 # graphics method
 if (plot.find('boxfill') != -1):
@@ -47,9 +47,9 @@ else:
     print "Invalid plot"
     sys.exit(13)

-x.setantialiasing(0)
+x.setbgoutputdimensions(xSize,ySize)
 x.drawlogooff()
-x.plot(s, gm, ratio="autot")
+x.plot(s, gm, ratio="autot", bg=bg)
 name = "test_autot_axis_titles_" + plot[2:] + "_" + x_over_y + "_" + str(bg) + ".png"
 x.png(name)

running script:

"/usr/local/uvcdat/2.4.1rc/bin/python" "/git/uvcdat/testing/vcs/test_vcs_autot_axis_titles.py" "/Users/doutriaux1/build/uvcdat-testdata/baselines/vcs/test_vcs_autot_axis_titles_boxfill_0.5.png" "background" "a_boxfill" "0.5"
ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLDisplayListPainter.cxx, line 188
vtkOpenGLDisplayListPainter (0x7fb1de639cb0): failed after RenderInternal 1 OpenGL errors detected
  0 : (1285) Out of memory


ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLDisplayListPainter.cxx, line 188
vtkOpenGLDisplayListPainter (0x7fb1de68cd00): failed after RenderInternal 1 OpenGL errors detected
  0 : (1285) Out of memory


ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLDisplayListPainter.cxx, line 188
vtkOpenGLDisplayListPainter (0x7fb1de438890): failed after RenderInternal 1 OpenGL errors detected
  0 : (1285) Out of memory


ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLPolyDataMapper2D.cxx, line 442
vtkOpenGLPolyDataMapper2D (0x7fb1dbde4f90): failed after RenderOverlay 1 OpenGL errors detected
  0 : (1285) Out of memory


ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLDisplayListPainter.cxx, line 188
vtkOpenGLDisplayListPainter (0x7fb1de639cb0): failed after RenderInternal 1 OpenGL errors detected
  0 : (1285) Out of memory


ERROR: In /Users/doutriaux1/build/build/VTK/Rendering/OpenGL/vtkOpenGLDisplayListPainter.cxx, line 188
vtkOpenGLDisplayListPainter (0x7fb1de438890): failed after RenderInternal 1 OpenGL errors detected
  0 : (1285) Out of memory


Segmentation fault: 11

apple bug report:

Process:               Python [21653]
Path:                  /usr/local/uvcdat/2.4.1rc/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python
Identifier:            org.python.python
Version:               2.7.11 (2.7.11)
Code Type:             X86-64 (Native)
Parent Process:        bash [6361]
Responsible:           Terminal [473]
User ID:               45773

Date/Time:             2016-04-18 07:41:29.289 -0700
OS Version:            Mac OS X 10.11.3 (15D21)
Report Version:        11
Anonymous UUID:        15C0DA84-7E18-76E3-62E5-0C87609E8164

Sleep/Wake UUID:       EA5587EF-A4F1-4D08-9A3A-6B1EE42A6865

Time Awake Since Boot: 1400000 seconds
Time Since Wake:       530 seconds

System Integrity Protection: disabled

Crashed Thread:        0  Dispatch queue: com.apple.main-thread

Exception Type:        EXC_BAD_ACCESS (SIGSEGV)
Exception Codes:       KERN_INVALID_ADDRESS at 0x00000002e6287000

VM Regions Near 0x2e6287000:
    MALLOC_LARGE           00000002bd78d000-00000002e6287000 [651.0M] rw-/rwx SM=PRV  
--> 
    STACK GUARD            0000700000000000-0000700000001000 [    4K] ---/rwx SM=NUL  stack guard for thread 1

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0   libsystem_platform.dylib        0x00007fff9b475f49 _platform_memmove$VARIANT$Haswell + 41
1   libvtkRenderingCore-7.1.1.dylib 0x000000011591d8f8 vtkWindowToImageFilter::RequestData(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 6616 (vtkWindowToImageFilter.cxx:523)
2   libvtkRenderingCore-7.1.1.dylib 0x000000011591be89 vtkWindowToImageFilter::ProcessRequest(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 89 (vtkWindowToImageFilter.cxx:235)
3   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c814c4 vtkExecutive::CallAlgorithm(vtkInformation*, int, vtkInformationVector**, vtkInformationVector*) + 164 (vtkExecutive.cxx:775)
4   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c75cad vtkDemandDrivenPipeline::ExecuteData(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 141 (vtkDemandDrivenPipeline.cxx:491)
5   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c6cf6f vtkCompositeDataPipeline::ExecuteData(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 1807 (vtkCompositeDataPipeline.cxx:178)
6   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c74fff vtkDemandDrivenPipeline::ProcessRequest(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 1359 (vtkDemandDrivenPipeline.cxx:274)
7   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112cca5f2 vtkStreamingDemandDrivenPipeline::ProcessRequest(vtkInformation*, vtkInformationVector**, vtkInformationVector*) + 2834 (vtkStreamingDemandDrivenPipeline.cxx:328)
8   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c75a6f vtkDemandDrivenPipeline::UpdateData(int) + 1087 (vtkDemandDrivenPipeline.cxx:441)
9   libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112cca9d8 vtkStreamingDemandDrivenPipeline::Update(int, vtkInformationVector*) + 424 (vtkStreamingDemandDrivenPipeline.cxx:403)
10  libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112cca826 vtkStreamingDemandDrivenPipeline::Update(int) + 38 (vtkStreamingDemandDrivenPipeline.cxx:365)
11  libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c609f2 vtkAlgorithm::Update(int) + 50 (vtkAlgorithm.cxx:1457)
12  libvtkCommonExecutionModel-7.1.1.dylib  0x0000000112c609b8 vtkAlgorithm::Update() + 72 (vtkAlgorithm.cxx:1451)
13  libvtkCommonExecutionModelPython27D-7.1.1.dylib 0x0000000112b758b8 PyvtkAlgorithm_Update_s2(_object*, _object*) + 152 (vtkAlgorithmPython.cxx:2243)
14  libvtkCommonExecutionModelPython27D-7.1.1.dylib 0x0000000112b72732 PyvtkAlgorithm_Update(_object*, _object*) + 114 (vtkAlgorithmPython.cxx:2329)
15  org.python.python               0x0000000109c99511 PyEval_EvalFrameEx + 27905 (ceval.c:4350)
16  org.python.python               0x0000000109c9251a PyEval_EvalCodeEx + 1690 (ceval.c:3582)
17  org.python.python               0x0000000109c1e1bc function_call + 364 (funcobject.c:526)
18  org.python.python               0x0000000109bf84b3 PyObject_Call + 99 (abstract.c:2546)
19  org.python.python               0x0000000109c99c7c PyEval_EvalFrameEx + 29804 (ceval.c:4663)
20  org.python.python               0x0000000109c9251a PyEval_EvalCodeEx + 1690 (ceval.c:3582)
21  org.python.python               0x0000000109c9de26 fast_function + 118 (ceval.c:4450)
22  org.python.python               0x0000000109c993a8 PyEval_EvalFrameEx + 27544 (ceval.c:4371)
23  org.python.python               0x0000000109c9251a PyEval_EvalCodeEx + 1690 (ceval.c:3582)
24  org.python.python               0x0000000109c91e76 PyEval_EvalCode + 54 (ceval.c:669)
25  org.python.python               0x0000000109cbfc14 PyRun_FileExFlags + 164 (pythonrun.c:1370)
26  org.python.python               0x0000000109cbf74a PyRun_SimpleFileExFlags + 698 (pythonrun.c:948)
27  org.python.python               0x0000000109cd54f2 Py_Main + 3186 (main.c:643)
28  libdyld.dylib                   0x00007fff8fb995ad start + 1

Thread 1:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 2:: Dispatch queue: com.apple.libdispatch-manager
0   libsystem_kernel.dylib          0x00007fff8f182ff6 kevent_qos + 10
1   libdispatch.dylib               0x00007fff9ce08099 _dispatch_mgr_invoke + 216
2   libdispatch.dylib               0x00007fff9ce07d01 _dispatch_mgr_thread + 52

Thread 3:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 4:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 5:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 6:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 7:
0   libsystem_kernel.dylib          0x00007fff8f1826de __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff90495729 _pthread_wqthread + 1283
2   libsystem_pthread.dylib         0x00007fff90493365 start_wqthread + 13

Thread 0 crashed with X86 Thread State (64-bit):
  rax: 0x00000001bd75c980  rbx: 0x000000011a2d78d0  rcx: 0x0000000000005b00  rdx: 0x0000000000015180
  rdi: 0x00000001bd76c000  rsi: 0x00000002e6287000  rbp: 0x00007fff5601a800  rsp: 0x00007fff5601a800
   r8: 0x0000000000000000   r9: 0x0000000000000870  r10: 0x00007fff5601a6d8  r11: 0xfffffffed74e5000
  r12: 0x0000000000000000  r13: 0x00007fb1dbc07660  r14: 0x0000000000000000  r15: 0x00007fb1dbc639c0
  rip: 0x00007fff9b475f49  rfl: 0x0000000000010202  cr2: 0x00000002e6287000

Logical CPU:     0
Error Code:      0x00000004
Trap Number:     14


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External Modification Summary:
  Calls made by other processes targeting this process:
    task_for_pid: 8
    thread_create: 0
    thread_set_state: 0
  Calls made by this process:
    task_for_pid: 0
    thread_create: 0
    thread_set_state: 0
  Calls made by all processes on this machine:
    task_for_pid: 71191148
    thread_create: 0
    thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=438.8M resident=0K(0%) swapped_out_or_unallocated=438.8M(100%)
Writable regions: Total=7.3G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=7.3G(100%)

                                VIRTUAL   REGION 
REGION TYPE                        SIZE    COUNT (non-coalesced) 
===========                     =======  ======= 
Activity Tracing                  2048K        2 
CG image                             4K        2 
CG shared images                   208K        6 
CoreAnimation                       40K        5 
CoreUI image data                   76K        2 
CoreUI image file                  160K        3 
Dispatch continuations            8192K        2 
IOKit                            622.0M       60 
Kernel Alloc Once                    8K        3 
MALLOC                             2.1G       42 
MALLOC guard page                   32K        7 
MALLOC_LARGE (reserved)            3.9G        2         reserved VM address space (unallocated)
STACK GUARD                       56.0M        9 
Stack                             11.1M        9 
VM_ALLOCATE                       24.0M       61 
__DATA                            90.2M      525 
__GLSLBUILTINS                    2588K        2 
__IMAGE                            528K        2 
__LINKEDIT                       149.4M      282 
__TEXT                           289.5M      506 
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shared memory                    612.4M       54 
===========                     =======  ======= 
TOTAL                              7.8G     1575 
TOTAL, minus reserved VM space     4.0G     1575 

Model: MacBookAir6,2, BootROM MBA61.0099.B21, 2 processors, Intel Core i7, 1.7 GHz, 8 GB, SMC 2.13f15
Graphics: Intel HD Graphics 5000, Intel HD Graphics 5000, Built-In
Memory Module: BANK 0/DIMM0, 4 GB, DDR3, 1600 MHz, 0x80AD, 0x483943434E4E4E384A544D4C41522D4E544D
Memory Module: BANK 1/DIMM0, 4 GB, DDR3, 1600 MHz, 0x80AD, 0x483943434E4E4E384A544D4C41522D4E544D
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x117), Broadcom BCM43xx 1.0 (7.21.94.136.1a1)
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Thunderbolt Bus: MacBook Air, Apple Inc., 23.6
Thunderbolt Device: Thunderbolt to Gigabit Ethernet Adapter, Apple Inc., 1, 5.5

@doutriaux1 doutriaux1 added this to the 2.6 milestone Apr 18, 2016

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doutriaux1 commented Apr 18, 2016

@danlipsa the diff is in branch fix_Autot can you reproduce?

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danlipsa commented Apr 21, 2016

@doutriaux1 On linux adding
x.setbgoutputdimensions(xSize,ySize)
after vcs.init results in
X Error of failed request: BadAlloc (insufficient resources for operation)
Major opcode of failed request: 53 (X_CreatePixmap)
Serial number of failed request: 29
Current serial number in output stream: 31
So, this does not seem to have anything to do with autot or VTK.

@danlipsa danlipsa added VTK and removed VTK labels Apr 21, 2016

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danlipsa commented Apr 21, 2016

I would think doing any plot with these to set would result in a similar crash.

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doutriaux1 commented Apr 21, 2016

@danlipsa yes there are two issues here
1- you didn't set an output dimension to your tests png so they were different on different machines and that led to the tests failing
2- I tried to fix 1- by setbgoutputdimensions and now it seg fault. NOt sure if that is a VTK or vcs issue.

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danlipsa commented Apr 22, 2016

No, I set the size at the beginning of the file: 800 by 400 (or 400 by 800). I think the problem is in foreground mode, when the window is resized by the OS and ends up a different size.
I had to reduce the resolution when moving from my desktop to my laptop, but I did not look very closely at it. Try 600 by 300. If that works on your laptop, we can move on and look at this issue latter.

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danlipsa commented May 12, 2016

@doutriaux1 I reduced the size of the image to make it 250 x 500 and reenabled the autot tests. Could you test those on you mac.
#1967

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aashish24 commented May 25, 2016

@danlipsa will look into it.

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danlipsa commented May 27, 2016

@doutriaux1 @aashish24 The problem here is:
x.setbgoutputdimensions(1620, 1080)
this function has the default units 'inches' so this results in setting the resolution 116640x77760 pixels.
Understandably, on linux X reports: BadAlloc (insufficient resources for operation). We cannot do much about mac crashing. 😄
So, I'll close this once I get the go ahead from you guys.

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doutriaux1 commented May 27, 2016

I don't understand. Didn't we use that for years and always ended up with the correct (in pixels) size for our baselines? Did this change recently? Anyhow I would say let's make it pixels by default.

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danlipsa commented May 27, 2016

Maybe this API is more for the physical size of the output - at least this is what the documentation suggests. It has examples for output being US Legal and A4.. You can specify the size of the screen/off-screen buffer as the geometry parameter to init. So I would propose to leave it as it is and close this Issue.

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danlipsa commented May 27, 2016

Other defaults:
vcs.png: units=None - > I think this results in pixels
vcs.pdf: units='inches'
vcs.svg: units='inches'
vcs.postcript: units='inches'

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danlipsa commented Jun 3, 2016

@aashish24 Do you have any input on this?

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aashish24 commented Jun 6, 2016

@danlipsa like @doutriaux1 I am curious too. For testing we set the bg dimensions and I thought they are in pixels since the resultant image seems to be of correct size. My question is why we get right size on my machine if the unit is set to inches. I apologize if you already explain it but I couldn't find the clear answer for this question.

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danlipsa commented Jun 6, 2016

@doutriaux1 @aashish24 grepping for this function shows that everywhere it is used has units='pixels' parameter added. Also the default value for the parameter units='inches' goes back at least to bb62d26 which is Dec 29 2011. The repo goes back to 29 10:06:12 2010 and the function did not exist then.

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danlipsa commented Jul 1, 2016

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danlipsa commented Jul 27, 2016

We fix this by deprecating setbgoutputdimensions() and removing bgX and bgY.

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