[Mne_analysis] mne.viz.plot_source_estimates generates a blank window

Tue Apr 26 14:05:17 EDT 2016

Yeah go ahead and make an issue, we'll try to isolate the problem there.

Eric

On Tue, Apr 26, 2016 at 2:00 PM, Gladia Hotan <gladiach at gmail.com> wrote:

> Hi,
>
> This is on Linux.
>
> Sure, should I post the error on github?
>
> I'm quite new to python so I don't know how to check if my packages are up
> to date. I'm using the python package installed on the cluster at the
> Martinos center. I'll check with the IT folks, thanks!
>
> Best,
> Gladia
>
>
> On Tuesday, April 26, 2016, Eric Larson <larson.eric.d at gmail.com> wrote:
>
>> Is this on Windows? That looks like a Unix directory structure to me.
>>
>> In any case, it looks like a bug with Anaconda to me. It will probably be
>> tough to debug. If you can make an mne-python issue, we can try to isolate
>> it to some minimal example that only uses Mayavi. Then the Anaconda folks
>> can fix it hopefully.
>>
>> In the meantime, do you know if your packages are up to date? You can
>> normally do e.g. `conda update mayavi` but it looks like you're on a site
>> install, so you'll have to ask your IT folks (and maybe see if they can
>> replicate it, too).
>>
>> Eric
>>
>>
>> On Tue, Apr 26, 2016 at 1:35 PM, Denis-Alexander Engemann <
>> denis.engemann at gmail.com> wrote:
>>
>>> Oh, this does not look nice. Does anybody have experience with Mayavi on
>>> Windows? Eric?
>>>
>>>
>>> On Tue, Apr 26, 2016 at 7:30 PM Gladia Hotan <gladiach at gmail.com> wrote:
>>>
>>>> Hi, I ran mne.viz.plot_source_estimates(stc,subject=<subject_name>,...)
>>>> but I got a blank window and this error:
>>>>
>>>> (<unknown>:39799): Gtk-WARNING **: gtk_disable_setlocale() must be
>>>> called before gtk_init()
>>>> Traceback (most recent call last):
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/IPython/core/interactiveshell.py",
>>>> line 3035, in run_code
>>>>     exec(code_obj, self.user_global_ns, self.user_ns)
>>>>   File "<ipython-input-1-16aa827441a7>", line 1, in <module>
>>>>
>>>> mne.viz.plot_source_estimates(stc,subject='eeganes03',surface='inflated',hemi='lh',colormap='auto',time_label='time=%0.2fms',smoothing_steps=10,transparent=None,alpha=1.0,time_viewer=False,config_opts=None,subjects_dir=None,figure=None,views='lat',colorbar=True,clim='auto')
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/mne/viz/_3d.py",
>>>> line 593, in plot_source_estimates
>>>>     brain = Brain(subject, hemi, surface, **kwargs)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/surfer/viz.py",
>>>> line 395, in __init__
>>>>     self._scene_size, offscreen)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/surfer/viz.py",
>>>> line 212, in _make_viewer
>>>>     figure = mlab.figure(title, size=(w, h))
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/mayavi/tools/figure.py",
>>>> line 86, in figure
>>>>     engine.new_scene(name=name, size=size)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/apptools/scripting/recordable.py",
>>>> line 45, in _wrapper
>>>>     result = func(*args, **kw)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/mayavi/core/engine.py",
>>>> line 434, in new_scene
>>>>     viewer = self.scene_factory(**factory_kwargs)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/mayavi/core/ui/mayavi_scene.py",
>>>> line 89, in viewer_factory
>>>>     viewer.open()
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/pyface/i_window.py",
>>>> line 145, in open
>>>>     self._create()
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/pyface/ui/wx/application_window.py",
>>>> line 151, in _create
>>>>     contents = self._create_contents(body)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/tools/ivtk.py",
>>>> line 392, in _create_contents
>>>>     self.scene = self._scene_factory(parent)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/mayavi/core/ui/mayavi_scene.py",
>>>> line 68, in mayavi_scene_factory
>>>>     s = MayaviScene(parent, stereo=p['stereo'])
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/ui/wx/decorated_scene.py",
>>>> line 69, in __init__
>>>>     super(DecoratedScene, self).__init__(parent, **traits)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/ui/wx/scene.py",
>>>> line 302, in __init__
>>>>     super(Scene, self).__init__(parent, **traits)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/tvtk_scene.py",
>>>> line 201, in __init__
>>>>     self.control = self._create_control(parent)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/ui/wx/decorated_scene.py",
>>>> line 103, in _create_control
>>>>     self._panel)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/ui/wx/scene.py",
>>>> line 575, in _create_control
>>>>     stereo=self.stereo)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/tvtk/pyface/ui/wx/wxVTKRenderWindowInteractor.py",
>>>> line 186, in __init__
>>>>     attribList=attribList)
>>>>   File
>>>> "/usr/pubsw/packages/python/anaconda/lib/python2.7/site-packages/wx-3.0-gtk2/wx/glcanvas.py",
>>>> line 106, in __init__
>>>>     _glcanvas.GLCanvas_swiginit(self,_glcanvas.new_GLCanvas(*args,
>>>> **kwargs))
>>>> TypeError: Argument given by name ('attribList') and position (3)
>>>>
>>>> I get the same error whether or not I set the 'SUBJECT' environment
>>>> variable (using os.environ['SUBJECT']=<subject_name>. Could anyone tell me
>>>> how to get around this?
>>>>
>>>> Best,
>>>> Gladia
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