[Mne_analysis] How to save figures in a loop without displaying them?

[Maria Hakonen]

I have imported matplotlib.use('Agg') before matplotlib.pyplot as plt and
also tried import it after matplotlib.pyplot but the result is the same.

-Maria


2014-08-17 22:35 GMT+03:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

> Hi Maria,
>
>
> On Sun, Aug 17, 2014 at 9:18 PM, Maria Hakonen <maria.hakonen at gmail.com>
> wrote:
>
>> Hi,
>>
>> I tried to activate Agg by adding matplotlib.use('Agg') in my code.
>> Before it I have imported:
>>
>>
> matplotlib.use('Agg') must be importet before
>
>
>> import numpy as np
>> import mne
>> from mne.io import Raw
>> import os
>> from mne.preprocessing import ICA, create_eog_epochs
>> import matplotlib
>>
>
> the line below
>
>
>> import matplotlib.pyplot as plt
>>
>>
> can you confirm this is the case?
>
>
>>  I also added plt.close('all') at the end of the code.
>> I started python without --pylab qt flag (i.e. typing ipython).
>>
>> However, I think that Agg is not activated because the script still plots
>> the figures and waits until the figure is closed.
>>
>> -Maria
>>
>>
>> 2014-08-17 19:32 GMT+03:00 Denis-Alexander Engemann <
>> denis.engemann at gmail.com>:
>>
>> Maria, does this happen for all plots that you try not to show? Might be
>>> a bug in that particular function.
>>>
>>> Btw. what did you mean when you said the script is running very long
>>> time?
>>> You mean it hangs (because it's waiting for you to close the figures)?
>>> Have you been able to activate the 'Agg' silent backend using the lines
>>> I suggested?
>>>
>>> -Denis
>>>
>>> On Sun, Aug 17, 2014 at 6:27 PM, Maria Hakonen <maria.hakonen at gmail.com>
>>> wrote:
>>>
>>>> I have set the show parameter false as follows:
>>>>  ica.plot_sources(epochs_bp,eog_inds,show=False)
>>>>
>>>> However, the figures are still shown. I wonder what could be wrong
>>>> there?
>>>>
>>>> -Maria
>>>>
>>>>
>>>>
>>>> 2014-08-17 16:26 GMT+03:00 Alexandre Gramfort <
>>>> alexandre.gramfort at telecom-paristech.fr>:
>>>>
>>>> hi Maria,
>>>>>
>>>>> > Thanks for the answer.
>>>>> > However, the script seems to run very long time if ipython is started
>>>>> > without --pylab qt flag. I wonder if there is any other ways to save
>>>>> the
>>>>> > figures in the loop without displaying them?
>>>>>
>>>>> most viz functions have a show parameter that is true by default. Set
>>>>> it
>>>>> to false to avoid showing the figures.
>>>>>
>>>>> HTH
>>>>> Alex
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