[Mne_analysis] Saving a file in EDF format

[Alejandro Weinstein]

        External Email - Use Caution        

It seems it's a problem with the configuration of my machine. The
behavior I observe is described here:

https://superuser.com/questions/1115983/prevent-system-freeze-unresponsiveness-due-to-swapping-run-away-memory-usage
https://unix.stackexchange.com/questions/271765/machine-freezes-once-it-hits-swap-space-under-heavy-load

I'll see if I can fix it.

Alejandro

On 7 May 2018 at 20:40, Alejandro Weinstein
<alejandro.weinstein at gmail.com> wrote:
> Thank you Phillip for the answer.
>
> I tried saving to a BV file using your function, but my laptop
> completely freeze. I had to hard reset the laptop to bring it back.
>
> The raw object is big (around 900 MB), and after calling
> philistine.mne.write_raw_brainvision, the laptop run out of RAM and
> starts using the swap. I would expect that to be slow, but not to
> freeze the machine. I don't know if there is something odd with my
> machine or if it's the function that misbehave. I'll try tomorrow with
> another machine and see how it goes.
>
> Alejandro
>
> On 7 May 2018 at 17:11, Alday, Phillip <Phillip.Alday at mpi.nl> wrote:
>> Since you want to open it up in Brainvision, why not just export to
>> BrainVision format?
>>
>> https://philistine.readthedocs.io/en/master/api/philistine.mne.write_raw_brainvision.html#philistine.mne.write_raw_brainvision
>>
>> That function isn't yet in the PyPI release, so you'll have to install
>> via Git:
>>
>> python -m pip install --user --upgrade
>> git+https://gitlab.com/palday/philistine.git
>>
>> In my preliminary tests, the triggers and raw data match when reading in
>> a BV file, writing it out, and then reading it back in, but I haven't
>> yet tested everything extensively. If you find a bug, please report it!
>>
>> Phillip
>>
>>
>> On 07/05/18 22:04, Alejandro Weinstein wrote:
>>>         External Email - Use Caution
>>>
>>> Sorry for the copy paste error. Instead of
>>> "https://ohbm-openscience.org/" it should say "mne.io.read_raw_edf"
>>>
>>> On 7 May 2018 at 17:02, Alejandro Weinstein
>>> <alejandro.weinstein at gmail.com> wrote:
>>>> Hi:
>>>>
>>>> Is it posible to save a raw object in EDF format?
>>>>
>>>> The details of what I'm trying to do are as follow. I have a  Biosemi
>>>> BDF file that I read with `https://ohbm-openscience.org/`. I then
>>>> modify the trigger signal of this raw object:
>>>>
>>>> raw[mne.pick_types(raw.info, include=['STI 014']), :] = trigger
>>>>
>>>> (I think that how and why I need to change the trigger is not
>>>> relevant, but I can give details if that is useful)
>>>>
>>>> Now I want to save the raw object as a BDF file, but I haven't find
>>>> how. I can do raw.save, but that save the raw object as a FIF file.
>>>>
>>>> The reason I need a BDF file back is that the file will be processed
>>>> by another person using Brainvision, and it seems this software is not
>>>> able to open FIF files.
>>>>
>>>> I have also search for tools outside MNE to convert from FIF to BDF
>>>> with out succes.
>>>>
>>>> Alejandro
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