Re: [Matplotlib-users] wrong numpy version

[Nemanja S. <vla...@gm...>]

I see. But is there any other way to cope with this x server problem and
multiple figures plotting?


On Tue, Nov 12, 2013 at 3:21 PM, Benjamin Root <ben...@ou...> wrote:

>
>
>
> On Tue, Nov 12, 2013 at 7:37 AM, Nemanja Savic <vla...@gm...> wrote:
>
>> Hi all guys,
>>
>> I am using RHEL6 and I am ploting figures throughout my project, so I
>> wanted some workaroung blocking show() function call. I have found few
>> solutions that use multiprocessing, so finally i finished with this:
>>
>> pool.map(plot_graph, c)
>>
>> and
>>
>> def plot_graph(*args):
>>     plt.figure(args[0][2])
>>     plt.bar(args[0][1][:-1], args[0][0], width=1)
>>     plt.show()
>>
>> But when I have more than one figure the following error occures:
>>
>>
>> /usr/lib64/python2.6/site-packages/matplotlib/backends/backend_gtk.py:621:
>> DeprecationWarning: Use the new widget gtk.Tooltip
>>   self.tooltips = gtk.Tooltips()
>> /usr/lib64/python2.6/site-packages/matplotlib/backends/backend_gtk.py:621:
>> DeprecationWarning: Use the new widget gtk.Tooltip
>>   self.tooltips = gtk.Tooltips()
>> [xcb] Unknown sequence number while processing queue
>> [xcb] Most likely this is a multi-threaded client and XInitThreads has
>> not been called
>> [xcb] Aborting, sorry about that.
>> python: xcb_io.c:273: poll_for_event: Assertion
>> `!xcb_xlib_threads_sequence_lost' failed.
>> runner.py: Fatal IO error 0 (Success) on X server :0.0.
>>
>> Since my version of matplolib doesnt support blocking = false solution, I
>> wanted to install new version. For that I installed new version of numpy
>> but when i run python setup.py build in matplolib foldet i get following:
>>
>> Edit setup.cfg to change the build options
>>
>> BUILDING MATPLOTLIB
>>             matplotlib: yes [1.3.1]
>>                 python: yes [2.6.6 (r266:84292, May 27 2013, 05:35:12)
>> [GCC
>>                         4.4.7 20120313 (Red Hat 4.4.7-3)]]
>>               platform: yes [linux2]
>>
>> REQUIRED DEPENDENCIES AND EXTENSIONS
>>                  numpy: yes [version 1.8.0]
>>               dateutil: yes [using dateutil version 1.4.1]
>>                tornado: yes [tornado was not found. It is required for the
>>                         WebAgg backend. pip/easy_install may attempt to
>>                         install it after matplotlib.]
>>              pyparsing: yes [pyparsing was not found. It is required for
>>                         mathtext support. pip/easy_install may attempt to
>>                         install it after matplotlib.]
>>                  pycxx: yes [Couldn't import.  Using local copy.]
>>                 libagg: yes [pkg-config information for 'libagg' could not
>>                         be found. Using local copy.]
>>               freetype: yes [version 9.22.3]
>>                    png: yes [version 1.2.49]
>>
>> OPTIONAL SUBPACKAGES
>>            sample_data: yes [installing]
>>               toolkits: yes [installing]
>>                  tests: yes [nose 0.11.1 or later is required to run the
>>                         matplotlib test suite]
>>
>> OPTIONAL BACKEND EXTENSIONS
>>                 macosx: no  [Mac OS-X only]
>>                 qt4agg: yes [installing, Qt: 4.6.2, PyQt4: 4.6.2]
>>                gtk3agg: no  [Requires pygobject to be installed.]
>>              gtk3cairo: no  [Requires pygobject to be installed.]
>>                 gtkagg: yes [installing, Gtk: 2.18.9 pygtk: 2.16.0]
>>                  tkagg: yes [installing, version 73770]
>>                  wxagg: yes [installing, version 2.8.12.0]
>>                    gtk: yes [installing, Gtk: 2.18.9 pygtk: 2.16.0]
>>                    agg: yes [installing]
>>                  cairo: yes [installing, version 1.8.6]
>>              windowing: no  [Microsoft Windows only]
>>
>> OPTIONAL LATEX DEPENDENCIES
>>                 dvipng: yes [version 1.14]
>>            ghostscript: yes [version 8.70]
>>                  latex: yes [version 3.1415926]
>>                pdftops: no
>>
>> Traceback (most recent call last):
>>   File "setup.py", line 268, in <module>
>>     **extra_args
>>   File "/usr/lib64/python2.6/distutils/core.py", line 113, in setup
>>     _setup_distribution = dist = klass(attrs)
>>   File "build/bdist.linux-x86_64/egg/setuptools/dist.py", line 221, in
>> __init__
>>   File "build/bdist.linux-x86_64/egg/setuptools/dist.py", line 245, in
>> fetch_build_eggs
>>   File "build/bdist.linux-x86_64/egg/pkg_resources.py", line 592, in
>> resolve
>>     plugin_projects.sort()  # scan project names in alphabetic order
>> pkg_resources.VersionConflict: (numpy 1.4.1
>> (/usr/lib64/python2.6/site-packages), Requirement.parse('numpy>=1.5'))
>>
>> When I run python and check numpy version it is indeed 1.8.0, but
>> matplotlib buils script somehow founded older one.
>>
>>
>> I would be really happy if somebody can help me overcome problem with
>> many figures.
>>
>> Best and cheers
>>
>>
> The issue is rather complex, and it is a very difficult one to solve on
> our end. What is happening is that in order to build matplotlib from
> source, you need to compile against the numpy headers at build-time.
> Unfortunately, python packaging being what it is, there is difficulty in
> making sure that the version of numpy that will be installed is the version
> used for the build. You seem to have numpy installed both at the system
> level and possibly at the user level. If possible, I would try removing
> numpy from your system level (and that likely means removing any other
> installed package that depends on it, and reinstalling via source).
>
> Ben Root
>



-- 
Nemanja Savić