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

[Maria Hakonen]

Hi all,

I moved matplotlib.use('Agg') before all imported modules but matplotlib as
follows and this seems to run without displaying the figures:

import matplotlib
matplotlib.use('Agg')
import matplotlib.pyplot as plt
import numpy as np
import mne
from mne.io import Raw
import os
from mne.preprocessing import ICA, create_eog_epochs

This doesn't work:
import matplotli
import numpy as np
import mne
from mne.io import Raw
import os
from mne.preprocessing import ICA, create_eog_epochs
matplotlib.use('Agg')
import matplotlib.pyplot as plt

Regards,
Maria


2014-08-18 2:04 GMT+03:00 Teon Brooks <teon.brooks at gmail.com>:

> Hey everyone,
>
> I was looking at the code for plot_ica_scores and there is currently no
> 'show' kwarg. Also there's no conditional statement related to this as
> well. I just submitted a PR to address this.
>
> -teon
>
>
> On Sun, Aug 17, 2014 at 10:50 PM, Mainak Jas <mainakjas at gmail.com> wrote:
>
>> Hi Maria,
>>
>> On Sun, Aug 17, 2014 at 7:27 PM, Maria Hakonen <maria.hakonen at gmail.com>
>> wrote:
>>
>>> I have set the show parameter false as follows:
>>>  ica.plot_sources(epochttps://
>>> mail.google.com/mail/u/0/?tab=wm#label/m-lists%2FMNE_analysis/147e00e5cb0f01d8hs_bp,eog_inds,show=False
>>> )
>>>
>>>
>>
>>> However, the figures are still shown. I wonder what could be wrong there?
>>>
>>
>> It seems to me that you intend to use exclude=eog_inds but since you do
>> not pass it as a keyword argument, it might get interpreted differently and
>> give unexpected results. Is epochs_bp an instance of Epochs? I raised an
>> issue on github: https://github.com/mne-tools/mne-python/issues/1516 to
>> fix the problem with show=False. You should install the development version
>> and use show=False once this is fixed.
>>
>> Mainak
>>
>>
>>
>>> -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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