matplotlib-users

[Matplotlib-users] Crash when trying to build docs on windows

[Jörgen S. <jor...@bo...>]

Hi,

I have tried to build the docs of current trunk on windows using 
python2.5. But I get a crash with an Assertion failed: ob_refcnt == 0, 
file CXX\cxx_extensions.cxx, line 1128

There are also some warnings caused by the use of the link mpl_data. Is 
it possible to get this link to work on win32?

versions:
sphinx: 0.3 $Revision: 64324 $
docutils: 0.5
matplotlib: 0.98.0 r5583
numpy: '1.1.0.dev5176'

/Jörgen



C:\python\external\matplotlib-trunk\doc>make.py
Sphinx v0.3, building html
trying to load pickled env... not found
building [html]: targets for 42 source files that are out of date
updating environment: 42 added, 0 changed, 0 removed
reading... api/artist_api api/axes_api api/axis_api 
api/backend_bases_api api/ba
ckend_gtkagg_api api/backend_qt4agg_api api/backend_wxagg_api 
api/cbook_api api/
cm_api api/collections_api api/colorbar_api api/index 
api/index_backend_api api/
matplotlib_configuration_api api/pyplot_api devel/add_new_projection 
devel/codin
g_guide devel/documenting_mpl devel/index devel/outline 
devel/transformations fa
q/environment_variables_faq faq/howto_faq faq/index faq/installing_faq 
faq/troub
leshooting_faq glossary/index index users/annotations     already have 
pyplots\a
nnotation_basic.py
     already have pyplots\annotation_polar.py
users/arraydata users/artists     already have 
pyplots\fig_axes_labels_simple.py

     already have pyplots\fig_x.py
     already have pyplots\fig_axes_customize_simple.py
     already have pyplots\dollar_ticks.py
users/customizing users/event_handling users/index users/index_text 
users/intro
users/mathtext     already have pyplots\pyplot_mathtext.py
users/navigation_toolbar users/pyplot_tutorial     already have 
pyplots\pyplot_s
imple.py
     already have pyplots\pyplot_formatstr.py
     already have pyplots\pyplot_three.py
     already have pyplots\pyplot_two_subplots.py
     already have pyplots\pyplot_text.py
     already have pyplots\pyplot_annotate.py
users/text_intro     already have pyplots\text_commands.py
users/text_props     already have pyplots\text_layout.py
users/usetex     already have pyplots\tex_demo.py
     already have pyplots\tex_unicode_demo.py

WARNING: 
C:\python\external\matplotlib-trunk\doc\api\backend_qt4agg_api.rst:5: (
WARNING/2) autodoc can't import/find module 
'matplotlib.backends.backend_qt4agg'
, check your spelling and sys.path
WARNING: 
C:\python\external\matplotlib-trunk\doc\api\backend_wxagg_api.rst:5: (W
ARNING/2) autodoc can't import/find module 
'matplotlib.backends.backend_wxagg',
check your spelling and sys.path
WARNING: C:\python\external\matplotlib-trunk\doc\api\cbook_api.rst:9: 
(WARNING/2
) error while formatting signature for matplotlib.cbook.Xlator: arg is 
not a Pyt
hon function
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\customizing.rst:66: (WARN
ING/2) Include file u'../mpl_data/matplotlibrc' not found or reading it 
failed
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:13
: Image file not readable: mpl_data\images\home.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:15
: Image file not readable: mpl_data\images\back.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:17
: Image file not readable: mpl_data\images\forward.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:30
: Image file not readable: mpl_data\images\move.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:54
: Image file not readable: mpl_data\images\zoom_to_rect.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:65
: Image file not readable: mpl_data\images\subplots.png
WARNING: 
C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:72
: Image file not readable: mpl_data\images\filesave.png
pickling the env... done
checking consistency...
WARNING: C:\python\external\matplotlib-trunk\doc\users\arraydata.rst:: 
document
isn't included in any toctree
writing output... api/artist_api api/axes_api api/axis_api 
api/backend_bases_api
  api/backend_gtkagg_api api/backend_qt4agg_api api/backend_wxagg_api 
api/cbook_a
pi api/cm_api api/collections_api api/colorbar_api api/index 
api/index_backend_a
pi api/matplotlib_configuration_api api/pyplot_api 
devel/add_new_projection deve
l/coding_guide devel/documenting_mpl devel/index devel/outline 
devel/transformat
ions faq/environment_variables_faq faq/howto_faq faq/index 
faq/installing_faq fa
q/troubleshooting_faq glossary/index index users/annotations 
users/arraydata use
rs/artists users/customizing users/event_handling users/index 
users/index_text u
sers/intro users/mathtext $\circledR$
Assertion failed: ob_refcnt == 0, file CXX\cxx_extensions.cxx, line 1128

This application has requested the Runtime to terminate it in an unusual 
way.
Please contact the application's support team for more information.
Building HTML failed.

C:\python\external\matplotlib-trunk\doc>

Re: [Matplotlib-users] Crash when trying to build docs on windows

[Michael D. <md...@st...>]

I'm not sure these two issues are related.

Before I look deeper, have you updated from SVN today?  I fixed a bug 
earlier today related to using the STIX fonts (which appears to be where 
this is crashing) on narrow Unicode Python interpreters (which I believe 
Win32 Python is).

Occasionally I get these ob_refcnt assertions when distutils didn't 
decide to rebuild enough things.  Try doing a clean rebuild (if you 
haven't already).

Cheers,
Mike

Jörgen Stenarson wrote:
> Hi,
>
> I have tried to build the docs of current trunk on windows using 
> python2.5. But I get a crash with an Assertion failed: ob_refcnt == 0, 
> file CXX\cxx_extensions.cxx, line 1128
>
> There are also some warnings caused by the use of the link mpl_data. Is 
> it possible to get this link to work on win32?
>
> versions:
> sphinx: 0.3 $Revision: 64324 $
> docutils: 0.5
> matplotlib: 0.98.0 r5583
> numpy: '1.1.0.dev5176'
>
> /Jörgen
>
>
>
> C:\python\external\matplotlib-trunk\doc>make.py
> Sphinx v0.3, building html
> trying to load pickled env... not found
> building [html]: targets for 42 source files that are out of date
> updating environment: 42 added, 0 changed, 0 removed
> reading... api/artist_api api/axes_api api/axis_api 
> api/backend_bases_api api/ba
> ckend_gtkagg_api api/backend_qt4agg_api api/backend_wxagg_api 
> api/cbook_api api/
> cm_api api/collections_api api/colorbar_api api/index 
> api/index_backend_api api/
> matplotlib_configuration_api api/pyplot_api devel/add_new_projection 
> devel/codin
> g_guide devel/documenting_mpl devel/index devel/outline 
> devel/transformations fa
> q/environment_variables_faq faq/howto_faq faq/index faq/installing_faq 
> faq/troub
> leshooting_faq glossary/index index users/annotations     already have 
> pyplots\a
> nnotation_basic.py
>      already have pyplots\annotation_polar.py
> users/arraydata users/artists     already have 
> pyplots\fig_axes_labels_simple.py
>
>      already have pyplots\fig_x.py
>      already have pyplots\fig_axes_customize_simple.py
>      already have pyplots\dollar_ticks.py
> users/customizing users/event_handling users/index users/index_text 
> users/intro
> users/mathtext     already have pyplots\pyplot_mathtext.py
> users/navigation_toolbar users/pyplot_tutorial     already have 
> pyplots\pyplot_s
> imple.py
>      already have pyplots\pyplot_formatstr.py
>      already have pyplots\pyplot_three.py
>      already have pyplots\pyplot_two_subplots.py
>      already have pyplots\pyplot_text.py
>      already have pyplots\pyplot_annotate.py
> users/text_intro     already have pyplots\text_commands.py
> users/text_props     already have pyplots\text_layout.py
> users/usetex     already have pyplots\tex_demo.py
>      already have pyplots\tex_unicode_demo.py
>
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\api\backend_qt4agg_api.rst:5: (
> WARNING/2) autodoc can't import/find module 
> 'matplotlib.backends.backend_qt4agg'
> , check your spelling and sys.path
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\api\backend_wxagg_api.rst:5: (W
> ARNING/2) autodoc can't import/find module 
> 'matplotlib.backends.backend_wxagg',
> check your spelling and sys.path
> WARNING: C:\python\external\matplotlib-trunk\doc\api\cbook_api.rst:9: 
> (WARNING/2
> ) error while formatting signature for matplotlib.cbook.Xlator: arg is 
> not a Pyt
> hon function
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\customizing.rst:66: (WARN
> ING/2) Include file u'../mpl_data/matplotlibrc' not found or reading it 
> failed
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:13
> : Image file not readable: mpl_data\images\home.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:15
> : Image file not readable: mpl_data\images\back.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:17
> : Image file not readable: mpl_data\images\forward.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:30
> : Image file not readable: mpl_data\images\move.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:54
> : Image file not readable: mpl_data\images\zoom_to_rect.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:65
> : Image file not readable: mpl_data\images\subplots.png
> WARNING: 
> C:\python\external\matplotlib-trunk\doc\users\navigation_toolbar.rst:72
> : Image file not readable: mpl_data\images\filesave.png
> pickling the env... done
> checking consistency...
> WARNING: C:\python\external\matplotlib-trunk\doc\users\arraydata.rst:: 
> document
> isn't included in any toctree
> writing output... api/artist_api api/axes_api api/axis_api 
> api/backend_bases_api
>   api/backend_gtkagg_api api/backend_qt4agg_api api/backend_wxagg_api 
> api/cbook_a
> pi api/cm_api api/collections_api api/colorbar_api api/index 
> api/index_backend_a
> pi api/matplotlib_configuration_api api/pyplot_api 
> devel/add_new_projection deve
> l/coding_guide devel/documenting_mpl devel/index devel/outline 
> devel/transformat
> ions faq/environment_variables_faq faq/howto_faq faq/index 
> faq/installing_faq fa
> q/troubleshooting_faq glossary/index index users/annotations 
> users/arraydata use
> rs/artists users/customizing users/event_handling users/index 
> users/index_text u
> sers/intro users/mathtext $\circledR$
> Assertion failed: ob_refcnt == 0, file CXX\cxx_extensions.cxx, line 1128
>
> This application has requested the Runtime to terminate it in an unusual 
> way.
> Please contact the application's support team for more information.
> Building HTML failed.
>
> C:\python\external\matplotlib-trunk\doc>
>
> -------------------------------------------------------------------------
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-- 
Michael Droettboom
Science Software Branch
Operations and Engineering Division
Space Telescope Science Institute
Operated by AURA for NASA

Re: [Matplotlib-users] Crash when trying to build docs on windows

[Jörgen S. <jor...@bo...>]

Michael Droettboom skrev:
> I'm not sure these two issues are related.
> 
I don't think so either but I thought I should mention it anyway.

> Before I look deeper, have you updated from SVN today?  I fixed a bug 
> earlier today related to using the STIX fonts (which appears to be where 
> this is crashing) on narrow Unicode Python interpreters (which I believe 
> Win32 Python is).
> 
> Occasionally I get these ob_refcnt assertions when distutils didn't 
> decide to rebuild enough things.  Try doing a clean rebuild (if you 
> haven't already).
> 
> Cheers,
> Mike
> 

I did a svn up and a clean rebuild but still the same error. The error 
reminded me of the problems a while back when references to the 
fontfiles were not released. So I have tried to look at the filehandles 
using procexp but I cannot say if this is the problem, but I don't see 
any explosion in open file handles. But the crash is so sudden I may not 
be able to see this.

Any thing else I can check at my end?

/Jörgen

Re: [Matplotlib-users] Crash when trying to build docs on windows

[John H. <jd...@gm...>]

On Tue, Jun 17, 2008 at 3:00 PM, Jörgen Stenarson
<jor...@bo...> wrote:

> I did a svn up and a clean rebuild but still the same error. The error
> reminded me of the problems a while back when references to the
> fontfiles were not released. So I have tried to look at the filehandles
> using procexp but I cannot say if this is the problem, but I don't see
> any explosion in open file handles. But the crash is so sudden I may not
> be able to see this.
>
> Any thing else I can check at my end?

I wonder if the reference counting in py_as_array is wrong.  The most
likely culprit is the new function in src/ft2font.cpp.  Do we need an
incref here?   Joergen, does it help to comment out
the PyArray_SimpleNewFromData line and replace it with the commented
out block below it?  I need to dig into the ownership and reference
policy of these two funcs but I don't have time to do it now.


Py::Object
FT2Image::py_as_array(const Py::Tuple & args) {
  _VERBOSE("FT2Image::as_array");
  args.verify_length(0);

  npy_intp dimensions[2];
  dimensions[0] = get_height();  //numrows
  dimensions[1] = get_width();   //numcols


  PyArrayObject *A = (PyArrayObject *) PyArray_SimpleNewFromData(2,
dimensions, PyArray_UBYTE, _buffer);

  /*

  PyArrayObject *A = (PyArrayObject *) PyArray_FromDims(2, dimensions,
PyArray_UBYTE);


  unsigned char *src		= _buffer;
  unsigned char *src_end	= src + (dimensions[0] * dimensions[1]);
  unsigned char *dst		= (unsigned char *)A->data;

  while (src != src_end) {
    *dst++ = *src++;
  }
  */

  return Py::asObject((PyObject*)A);
}

Re: [Matplotlib-users] Crash when trying to build docs on windows

[Jörgen S. <jor...@bo...>]

John Hunter skrev:
> On Tue, Jun 17, 2008 at 3:00 PM, Jörgen Stenarson
> <jor...@bo...> wrote:
> 
>> I did a svn up and a clean rebuild but still the same error. The error
>> reminded me of the problems a while back when references to the
>> fontfiles were not released. So I have tried to look at the filehandles
>> using procexp but I cannot say if this is the problem, but I don't see
>> any explosion in open file handles. But the crash is so sudden I may not
>> be able to see this.
>>
>> Any thing else I can check at my end?
> 
> I wonder if the reference counting in py_as_array is wrong.  The most
> likely culprit is the new function in src/ft2font.cpp.  Do we need an
> incref here?   Joergen, does it help to comment out
> the PyArray_SimpleNewFromData line and replace it with the commented
> out block below it?  I need to dig into the ownership and reference
> policy of these two funcs but I don't have time to do it now.
> 

I tried this but it still crashes. Below is the change I did.

/Jörgen

Py::Object
FT2Image::py_as_array(const Py::Tuple & args) {
   _VERBOSE("FT2Image::as_array");
   args.verify_length(0);

   npy_intp dimensions[2];
   dimensions[0] = get_height();  //numrows
   dimensions[1] = get_width();   //numcols


   /*
   PyArrayObject *A = (PyArrayObject *) PyArray_SimpleNewFromData(2, 
dimensions, PyArray_UBYTE, _buffer);
   */


   PyArrayObject *A = (PyArrayObject *) PyArray_FromDims(2, dimensions, 
PyArray_UBYTE);


   unsigned char *src		= _buffer;
   unsigned char *src_end	= src + (dimensions[0] * dimensions[1]);
   unsigned char *dst		= (unsigned char *)A->data;

   while (src != src_end) {
     *dst++ = *src++;
   }

   return Py::asObject((PyObject*)A);
}