<div dir="ltr">Thank you Peter for reporting,<div>I will look into it today.<div><br></div><div>Denis</div></div></div><br><div class="gmail_quote"><div dir="ltr">On Fri, Mar 31, 2017 at 7:47 AM Alexandre Gramfort <<a href="mailto:alexandre.gramfort@telecom-paristech.fr">alexandre.gramfort@telecom-paristech.fr</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">hi,<br class="gmail_msg">
<br class="gmail_msg">
I could reproduce the problem. I opened I issue:<br class="gmail_msg">
<br class="gmail_msg">
<a href="https://github.com/mne-tools/mne-python/issues/4140" rel="noreferrer" class="gmail_msg" target="_blank">https://github.com/mne-tools/mne-python/issues/4140</a><br class="gmail_msg">
<br class="gmail_msg">
We'll fix ASAP. For now use n_jobs=1.<br class="gmail_msg">
<br class="gmail_msg">
Thanks for taking the time to report the bug.<br class="gmail_msg">
<br class="gmail_msg">
Best,<br class="gmail_msg">
Alex<br class="gmail_msg">
<br class="gmail_msg">
On Thu, Mar 30, 2017 at 7:44 PM, Peter Goodin <<a href="mailto:pgoodin@swin.edu.au" class="gmail_msg" target="_blank">pgoodin@swin.edu.au</a>> wrote:<br class="gmail_msg">
> Hi Alex,<br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> I'm using the standard mne.compute_covariance call<br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> cov = mne.compute_covariance(epochs['condition'], method = 'shrunk', n_jobs<br class="gmail_msg">
> = 3).<br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> I've attached a link to the error below. Also, I've tried using the PCA<br class="gmail_msg">
> method and get another error message (with the helpful suggestion to contact<br class="gmail_msg">
> you guys at the end!). Please find the link below too.<br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> Peter.<br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> shrunk estimate:<br class="gmail_msg">
> <a href="https://gist.github.com/orcasha/c990decc15f38a3300ffa6e2f976eb25" rel="noreferrer" class="gmail_msg" target="_blank">https://gist.github.com/orcasha/c990decc15f38a3300ffa6e2f976eb25</a><br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> PCA estimate:<br class="gmail_msg">
> <a href="https://gist.github.com/orcasha/443bc7e74fd3e7e50a7ce1371b4bef31" rel="noreferrer" class="gmail_msg" target="_blank">https://gist.github.com/orcasha/443bc7e74fd3e7e50a7ce1371b4bef31</a><br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
><br class="gmail_msg">
> _______________________<br class="gmail_msg">
> Dr Peter Goodin,<br class="gmail_msg">
><br class="gmail_msg">
> Brain and Psychological Sciences Research Centre (BPsyC)<br class="gmail_msg">
> Swinburne University,<br class="gmail_msg">
> Hawthorn, Vic, 3122<br class="gmail_msg">
> ________________________________<br class="gmail_msg">
> From: <a href="mailto:mne_analysis-bounces@nmr.mgh.harvard.edu" class="gmail_msg" target="_blank">mne_analysis-bounces@nmr.mgh.harvard.edu</a><br class="gmail_msg">
> <<a href="mailto:mne_analysis-bounces@nmr.mgh.harvard.edu" class="gmail_msg" target="_blank">mne_analysis-bounces@nmr.mgh.harvard.edu</a>> on behalf of Alexandre Gramfort<br class="gmail_msg">
> <<a href="mailto:alexandre.gramfort@telecom-paristech.fr" class="gmail_msg" target="_blank">alexandre.gramfort@telecom-paristech.fr</a>><br class="gmail_msg">
> Sent: 28 March 2017 21:00:42<br class="gmail_msg">
> To: Discussion and support forum for the users of MNE Software<br class="gmail_msg">
> Subject: Re: [Mne_analysis] Mne python compute covariance<br class="gmail_msg">
><br class="gmail_msg">
> hi Peter,<br class="gmail_msg">
><br class="gmail_msg">
> can you share a gist to replicate the problem?<br class="gmail_msg">
><br class="gmail_msg">
> I think I know what's going on but with a gist I am sure it fixes your pb.<br class="gmail_msg">
><br class="gmail_msg">
> thx<br class="gmail_msg">
> Alex<br class="gmail_msg">
><br class="gmail_msg">
> On Tue, Mar 28, 2017 at 12:58 AM, Peter Goodin <<a href="mailto:pgoodin@swin.edu.au" class="gmail_msg" target="_blank">pgoodin@swin.edu.au</a>> wrote:<br class="gmail_msg">
>> Hi,<br class="gmail_msg">
>><br class="gmail_msg">
>> I'm getting the following error<br class="gmail_msg">
>> (PicklingError: Can't pickle <class 'mne.cov._ShrunkCovariance'>: it's not<br class="gmail_msg">
>> found as mne.cov._ShrunkCovariance)<br class="gmail_msg">
>> when running computing covariance. It happens at the cross validation<br class="gmail_msg">
>> stage.<br class="gmail_msg">
>><br class="gmail_msg">
>> Any help would be appreciated.<br class="gmail_msg">
>><br class="gmail_msg">
>> Thanks,<br class="gmail_msg">
>><br class="gmail_msg">
>> Peter<br class="gmail_msg">
>><br class="gmail_msg">
>><br class="gmail_msg">
>><br class="gmail_msg">
>><br class="gmail_msg">
>><br class="gmail_msg">
>> _______________________<br class="gmail_msg">
>> Dr Peter Goodin,<br class="gmail_msg">
>><br class="gmail_msg">
>> Brain and Psychological Sciences Research Centre (BPsyC)<br class="gmail_msg">
>> Swinburne University,<br class="gmail_msg">
>> Hawthorn, Vic, 3122<br class="gmail_msg">
>><br class="gmail_msg">
>> _______________________________________________<br class="gmail_msg">
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> but does not contain patient information, please contact the sender and<br class="gmail_msg">
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</blockquote></div>