[Mne_analysis] Empty room BTI-to-FIF error

[Denis-Alexander Engemann]

        External Email - Use Caution        

Keep me in the loop. I may be able to help. Can you btw. exclude that it is
an issue for that particular file?
On Wed 26 Sep 2018 at 21:02, Alexandre Gramfort <alexandre.gramfort at inria.fr>
wrote:

>         External Email - Use Caution
>
> hi Josh,
>
> can you share the empty room data with a script crashes?
>
> thanks
> Alex
>
>
> On Wed, Sep 26, 2018 at 7:57 PM Bear, Joshua <JOSHUA.BEAR at ucdenver.edu>
> wrote:
> >
> > Hello everyone,
> >
> > I’m working with some BTI data and would like to include empty room
> recordings done prior to the patient recordings for my noise covariance.
> When importing the data using mne.io.read_raw_bti() I have to set
> convert=False or I get an error. Then, when trying to save the data to the
> FIF format, I will get the same error, presumably because it is now trying
> to perform the conversion function that I had previously avoided.
> >
> > I do not have any problems with the actual subject recordings, only the
> empty room one.
> >
> > I’ve included the error message below. Has anyone seen this before
> and/or have suggestions on how to get my empty room data converted to FIF?
> >
> > Thank you for your help,
> > Josh
> >
> >
> >
> >
> > This is the error that appears to occur during BTI to FIF conversion:
> >
> > Reading 4D PDF file /mystudy/06%29%18 at 13:28/1/c,rfhp0.1Hz...
> > Creating Neuromag info structure ...
> > ... Setting channel info structure.
> > ... putting coil transforms in Neuromag coordinates
> > Traceback (most recent call last):
> >   File "<stdin>", line 1, in <module>
> >   File "<string>", line 2, in read_raw_bti
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/utils.py",
> line 729, in verbose
> >     return function(*args, **kwargs)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/io/bti/bti.py",
> line 1398, in read_raw_bti
> >     eog_ch=eog_ch, preload=preload, verbose=verbose)
> >   File "<string>", line 2, in __init__
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/utils.py",
> line 729, in verbose
> >     return function(*args, **kwargs)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/io/bti/bti.py",
> line 1031, in __init__
> >     sort_by_ch_name=sort_by_ch_name, eog_ch=eog_ch)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/io/bti/bti.py",
> line 1209, in _get_bti_info
> >     t = _convert_coil_trans(t, dev_ctf_t, bti_dev_t)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/io/bti/bti.py",
> line 250, in _convert_coil_trans
> >     t = combine_transforms(invert_transform(dev_ctf_t), bti_dev_t,
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/mne/transforms.py",
> line 576, in invert_transform
> >     return Transform(trans['to'], trans['from'],
> linalg.inv(trans['trans']))
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/scipy/linalg/basic.py",
> line 946, in inv
> >     a1 = _asarray_validated(a, check_finite=check_finite)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/scipy/_lib/_util.py",
> line 238, in _asarray_validated
> >     a = toarray(a)
> >   File
> "/Users/joshbear/bin/anaconda3/envs/mne/lib/python3.6/site-packages/numpy/lib/function_base.py",
> line 1233, in asarray_chkfinite
> >     "array must not contain infs or NaNs")
> > ValueError: array must not contain infs or NaNs
> >
> >
> >
> >
> >
> > Joshua Bear, MD, MA | Assistant Professor, Pediatric Neurology and
> Epilepsy
> > 13123 East 16th Avenue, Box B-155 | Aurora, CO 80045 | Phone:
> 720-777-6138 | Fax: 720-777-7285
> >
> >         External Email - Use Caution
> >
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>
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