matplotlib-users Mailing List for matplotlib

Hi all,

I had matplotlib-0.99.1.1 working with Python 2.6 on OS X v10.6(Snow
Leopard). Today I upgraded to Lion (v10.7) and matplotlib had disappeared.
Lion ships with Apple¹s version of Python 2.7. Even when I look back at
Python 2.6 in the /System/Library/Frameworks/Python/Version/Python2.6, it
seems to be gone. OK, I thought I would install matplotlib-1.0.1 in Python
2.7 using easy_install. It failed when unable to find the headers for numpy
(terminal output below). Lion comes with numpy 1.5.1 pre-installed. I tried
re-installing numpy but that didn¹t help so now I¹m stuck.

Any suggestions?

Thanks.


c4-2c-3-1-f0-3a:matplotlib-1.0.1 williamcarithers$ sudo easy_install
matplotlib
Searching for matplotlib
Reading http://pypi.python.org/simple/matplotlib/
Reading http://matplotlib.sourceforge.net
Reading 
https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-1.0.
1/
Reading 
http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474
Reading http://sourceforge.net/project/showfiles.php?group_id=80706
Reading 
https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=8247
4
Reading 
https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99
.1/
Reading 
https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=2781
94
Reading 
https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99
.3/
Reading 
https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-1.0
Best match: matplotlib 1.0.1
Downloading 
http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-1.0.1
/matplotlib-1.0.1.tar.gz/download
Processing matplotlib-1.0.1.tar.gz
Running matplotlib-1.0.1/setup.py -q bdist_egg --dist-dir
/tmp/easy_install-OI8zuY/matplotlib-1.0.1/egg-dist-tmp-3EXRXm
basedirlist is: []
============================================================================
BUILDING MATPLOTLIB
            matplotlib: 1.0.1
                python: 2.7.1 (r271:86832, Jun 16 2011, 16:59:05)  [GCC
                        4.2.1 (Based on Apple Inc. build 5658) (LLVM build
                        2335.15.00)]
              platform: darwin

REQUIRED DEPENDENCIES
                 numpy: 1.5.1
                        * Could not find the headers for numpy.  You may
                        * need to install the development package.
error: Setup script exited with 1

This is a shot in the dark, but I've seen this before when matplotlib 
didn't get fully rebuilt after a numpy upgrade.

Mike

On 08/04/2011 01:13 PM, Alexey Uimanov wrote:
> here is the sample code "embedding_in_gtk2.py"
>
>   6 import gtk
>   7
>   8 from matplotlib.figure import Figure
>   9 from numpy import arange, sin, pi
> 10
> 11 # uncomment to select /GTK/GTKAgg/GTKCairo
> 12 #from matplotlib.backends.backend_gtk import FigureCanvasGTK as FigureCanvas
> 13 from matplotlib.backends.backend_gtkagg import FigureCanvasGTKAgg
> as FigureCanvas
> 14 #from matplotlib.backends.backend_gtkcairo import
> FigureCanvasGTKCairo as FigureCanvas
> 15
> 16 # or NavigationToolbar for classic
> 17 #from matplotlib.backends.backend_gtk import NavigationToolbar2GTK
> as NavigationToolbar
> 18 from matplotlib.backends.backend_gtkagg import
> NavigationToolbar2GTKAgg as NavigationToolbar
> 19
> 20
> 21 win = gtk.Window()
> 22 win.connect("destroy", lambda x: gtk.main_quit())
> 23 win.set_default_size(400,300)
> 24 win.set_title("Embedding in GTK")
> 25
> 26 vbox = gtk.VBox()
> 27 win.add(vbox)
> 28
> 29 fig = Figure(figsize=(5,4), dpi=100)
> 30 import pudb
> 31 pudb.set_trace()
> 32 ax = fig.add_subplot(111)
> 33 t = arange(0.0,3.0,0.01)
> 34 s = sin(2*pi*t)
> 35
> 36 ax.plot(t,s)
> 37
> 38
> 39 canvas = FigureCanvas(fig)  # a gtk.DrawingArea
> 40 vbox.pack_start(canvas)
> 41 toolbar = NavigationToolbar(canvas, win)
> 42 vbox.pack_start(toolbar, False, False)
> 43
> 44
> 45 win.show_all()
> 46 gtk.main()
>
> on line 36 error segfault.
> Here is the gdb session
>
> Starting program: /usr/bin/python2.7 embedding_in_gtk2.py
> [Thread debugging using libthread_db enabled]
>
> Program received signal SIGSEGV, Segmentation fault.
> 0x00007fffeda71594 in __cxa_allocate_exception () from
> /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.5/libstdc++.so.6
> #0  0x00007fffeda71594 in __cxa_allocate_exception () from
> /usr/lib/gcc/x86_64-pc-linux-gnu/4.4.5/libstdc++.so.6
> #1  0x00007fffe4830164 in py_to_agg_transformation_matrix(_object*, bool) ()
>     from /usr/lib64/python2.7/site-packages/matplotlib/_path.so
> #2  0x00007fffe483addb in _path_module::update_path_extents(Py::Tuple const&) ()
>     from /usr/lib64/python2.7/site-packages/matplotlib/_path.so
> #3  0x00007fffe4841ad8 in
> Py::ExtensionModule<_path_module>::invoke_method_varargs(void*,
> Py::Tuple const&) ()
>     from /usr/lib64/python2.7/site-packages/matplotlib/_path.so
> #4  0x00007fffe482b54d in method_varargs_call_handler () from
> /usr/lib64/python2.7/site-packages/matplotlib/_path.so
> #5  0x00007ffff7b09a7b in PyEval_EvalFrameEx () from
> /usr/lib64/libpython2.7.so.1.0
> #6  0x00007ffff7b0b658 in PyEval_EvalCodeEx () from
> /usr/lib64/libpython2.7.so.1.0
> #7  0x00007ffff7b09bc7 in PyEval_EvalFrameEx () from
> /usr/lib64/libpython2.7.so.1.0
> #8  0x00007ffff7b0b658 in PyEval_EvalCodeEx () from
> /usr/lib64/libpython2.7.so.1.0
> #9  0x00007ffff7b09bc7 in PyEval_EvalFrameEx () from
> /usr/lib64/libpython2.7.so.1.0
> #10 0x00007ffff7b0b658 in PyEval_EvalCodeEx () from
> /usr/lib64/libpython2.7.so.1.0
> #11 0x00007ffff7b09bc7 in PyEval_EvalFrameEx () from
> /usr/lib64/libpython2.7.so.1.0
> #12 0x00007ffff7b0b658 in PyEval_EvalCodeEx () from
> /usr/lib64/libpython2.7.so.1.0
> #13 0x00007ffff7b09bc7 in PyEval_EvalFrameEx () from
> /usr/lib64/libpython2.7.so.1.0
> #14 0x00007ffff7b0b658 in PyEval_EvalCodeEx () from
> /usr/lib64/libpython2.7.so.1.0
> #15 0x00007ffff7b0b762 in PyEval_EvalCode () from /usr/lib64/libpython2.7.so.1.0
> #16 0x00007ffff7b2545c in ?? () from /usr/lib64/libpython2.7.so.1.0
> #17 0x00007ffff7b25530 in PyRun_FileExFlags () from
> /usr/lib64/libpython2.7.so.1.0
> #18 0x00007ffff7b26a1f in PyRun_SimpleFileExFlags () from
> /usr/lib64/libpython2.7.so.1.0
> #19 0x00007ffff7b377cc in Py_Main () from /usr/lib64/libpython2.7.so.1.0
> #20 0x00007ffff74d4bad in __libc_start_main () from /lib64/libc.so.6
> #21 0x00000000004008c9 in _start ()
>
> I have python 2.7.1 and amd64 linux distributive (gentoo). I did not
> see this problem on x86 linux.
> Thanks.
>
> ------------------------------------------------------------------------------
> BlackBerry&reg; DevCon Americas, Oct. 18-20, San Francisco, CA
> The must-attend event for mobile developers. Connect with experts.
> Get tools for creating Super Apps. See the latest technologies.
> Sessions, hands-on labs, demos&  much more. Register early&  save!
> http://p.sf.net/sfu/rim-blackberry-1
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users


-- 
Michael Droettboom
Science Software Branch
Space Telescope Science Institute
Baltimore, Maryland, USA

Good afternoon Experts:

Do you know if there is an py application where I can build a
matplotlib  plot interactively for data series, and then when it
finished, the source code could be exported to be used in a python
application?


Many thanks for your help,

German

On Fri, Aug 5, 2011 at 4:22 AM, Paul Blelloch <pau...@at...> wrote:
> title   = 'Overlap'

Did you mean to do

  title("Overlap")

?
And yes it works as expected.
If it does not work for you, please post a simple but complete example.

-JJ

I just installed the fr_FR locale and tested your patch, and I don't
see any problem.
I suspect that this is the problem of Axes3D (that has recently fixed
by Ben), and has nothing with your patch.
If I revert Ben's commit, than an error is raised regardless of the
value of rcParams["axes.formatter.use_locale"].

Regards,

-JJ

On Sat, Aug 6, 2011 at 12:49 AM, Michael Droettboom <md...@st...> wrote:
> I'm still puzzled here.  The TeX file is definitely being generated with
> an unreasonably large size, which is what causes it to blow up.  It gets
> the size from the size of the matplotlib figure, which I assume is being
> incorrectly calculated by the tight bounding box code.  Of course, I
> can't reproduce that here, so I'm not sure what's going on.
>
> Do any of the developers who understand the tight bounding box code have
> any theories?
>
> Mike
>
> On 08/05/2011 09:57 AM, José Alexandre Nalon wrote:
>> Hello!
>>
>>> This is puzzling.  I can't reproduce this -- I even get nice commas.
>>> Are you running the locale_formatting branch exactly as it is (i.e. not
>>> applying it as a patch to another version of matplotlib)?  What platform
>>> are you on?  Which backend?  What does "echo $LANG" at the commandline say?
>> I actually am getting this error with a couple of scripts,
>> but both use bbox_inches='tight', and are 3D plots. I tried
>> 2D plots with this option and there was no problem. In every
>> script, I also get the commas. It is probably one of those
>> bugs that appear because of the configuration of the many
>> packages that are being used.
>>
>> I gathered some information, and I hope it helps. I am using
>> Kubuntu 10.10, and Texlive distribution. I downloaded the
>> .tar.gz package from github in your branch, and built it.
>> At the time of compilation, I didn't have Tk or GTK headers
>> (since I don't use matplotlib interactively, I don't really
>> need them). Below, I also included the list of met dependencies,
>> according to the installation script. I got no errors during
>> compilation, only a warning (also listed below). Tex file
>> and others are attached with this message (since my /tmp
>> directory was wiped in reboot, I had to run the script again,
>> hence the different names). This is all the information that I
>> could think of, but if there is anything else, just send a
>> message. Thanks again for your work!
>>
>> nalon@marvin:~/temp/test$ uname -a
>> Linux marvin 2.6.35-30-generic #56-Ubuntu SMP Mon Jul 11 20:00:22 UTC 2011
>> i686 GNU/Linux
>>
>> nalon@marvin:~/temp/test$ echo $LANG
>> pt_BR.UTF-8
>>
>> nalon@marvin:~/temp/test$ latex -v
>> pdfTeX 3.1415926-1.40.10-2.2 (TeX Live 2009/Debian)
>> kpathsea version 5.0.0
>> Copyright 2009 Peter Breitenlohner (eTeX)/Han The Thanh (pdfTeX).
>> There is NO warranty.  Redistribution of this software is
>> covered by the terms of both the pdfTeX copyright and
>> the Lesser GNU General Public License.
>> For more information about these matters, see the file
>> named COPYING and the pdfTeX source.
>> Primary author of pdfTeX: Peter Breitenlohner (eTeX)/Han The Thanh (pdfTeX).
>> Compiled with libpng 1.2.44; using libpng 1.2.44
>> Compiled with zlib 1.2.3.4; using zlib 1.2.3.4
>> Compiled with poppler version 0.14.2
>>
>> nalon@marvin:~/temp/test$ python
>> Python 2.6.6 (r266:84292, Sep 15 2010, 15:52:39)
>> [GCC 4.4.5] on linux2
>>
>>>>> numpy.__version__
>> '1.3.0'
>>>>> matplotlib.__version__
>> '1.1.0'
>>>>> print matplotlib.rcParams['backend']
>> agg
>>
>> Here is a relation of met dependencies and their versions
>> (according to matplotlib installation script):
>>
>> Qt: 4.7.0
>> PyQt: 4.8.1
>> Freetype2: 12.0.6
>> Cairo: 1.8.8
>> libpng: 1.2.44
>> dvipng: 1.13
>> ghostscript: 8.71
>> latex: 3.1415926
>> pdftops: 0.14.3
>>
>> No errors during installation, only these warnings:
>>
>> src/path.cpp: In member function ‘Py::Object
>> _path_module::convert_to_svg(const Py::Tuple&)’:
>> src/path.cpp:1590: warning: format not a string literal and no format
>> arguments
>> src/path.cpp:1590: warning: format not a string literal and no format
>> arguments
>> src/path.cpp:1593: warning: format not a string literal and no format
>> arguments
>> src/path.cpp:1593: warning: format not a string literal and no format
>> arguments
>> src/path.cpp:1502: warning: ‘clip_rect.agg::rect_base<double>::y2’ may be used
>> uninitialized in this function
>> src/path.cpp:1502: warning: ‘clip_rect.agg::rect_base<double>::x2’ may be used
>> uninitialized in this function
>> src/path.cpp:1502: warning: ‘clip_rect.agg::rect_base<double>::y1’ may be used
>> uninitialized in this function
>> src/path.cpp:1502: warning: ‘clip_rect.agg::rect_base<double>::x1’ may be used
>> uninitialized in this function
>>
>> ---
>> José Alexandre Nalon
>> na...@te...
>
>
> ------------------------------------------------------------------------------
> BlackBerry&reg; DevCon Americas, Oct. 18-20, San Francisco, CA
> The must-attend event for mobile developers. Connect with experts.
> Get tools for creating Super Apps. See the latest technologies.
> Sessions, hands-on labs, demos & much more. Register early & save!
> http://p.sf.net/sfu/rim-blackberry-1
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>