[Mne_analysis] Plotting Dipole orientations with MNE 15.0

Alexandre Gramfort alexandre.gramfort at inria.fr
Tue Oct 31 03:30:56 EDT 2017
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hi Nithya,

you need to update your pysurfer

pip install -U pysurfer

let us know if it does not fix the problem.

ALex

On Tue, Oct 31, 2017 at 12:58 AM, nithya <nithyar89 at gmail.com> wrote:

> Hi
>
> I am trying to compute and plot the orientation of the dipoles and i have been following the tutorial.
>
>
> stc_vec = apply_inverse(evoked, inverse_operator, lambda2,
>                         method=method, pick_ori='vector')
>
> The above computes fine, and gives me the stc_vec file. I am using dSPM for method and my snr = 1.
> lambda2 = 1. / snr ** 2
>
> The previous source estimate plots on the individual brain and average brain are all fine.
>
> However, when i plot the stc_vec,
>
> stc_vec.plot(hemi='rh', subjects_dir=subjects_dir,
>              clim=dict(kind='value', lims=[8, 12, 15]),
>              initial_time=time_max, time_unit='s')
>
> it gives me the following error.
> Traceback (most recent call last):
>
>   File "<ipython-input-35-a9e583e7e67f>", line 3, in <module>
>     initial_time=time_max, time_unit='s')
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/source_estimate.py", line 1978, in plot
>     initial_time=initial_time, time_unit=time_unit
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/viz/_3d.py", line 2053, in plot_vector_source_estimates
>     initial_time, ad_kwargs, sd_kwargs = _get_ps_kwargs(initial_time, '0.8')
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/viz/_3d.py", line 1919, in _get_ps_kwargs
>     require, surfer.__version__)
>
> TypeError: not enough arguments for format string
>
> Traceback (most recent call last):
>
>   File "<ipython-input-35-a9e583e7e67f>", line 3, in <module>
>     initial_time=time_max, time_unit='s')
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/source_estimate.py", line 1978, in plot
>     initial_time=initial_time, time_unit=time_unit
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/viz/_3d.py", line 2053, in plot_vector_source_estimates
>     initial_time, ad_kwargs, sd_kwargs = _get_ps_kwargs(initial_time, '0.8')
>
>   File "/usr/share/anaconda/lib/python2.7/site-packages/mne/viz/_3d.py", line 1919, in _get_ps_kwargs
>     require, surfer.__version__)
>
> TypeError: not enough arguments for format string
>
> Regards
>
> Nithya
>
>
>
>
>
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