[FieldTrip] ft_channelrepair ignoring missing channels, and destroying grad info on elekta data

[Stephen Whitmarsh]

Hi Craig,

If im not mistaken, maxfilter can repair channels.

Cheers,
stephen


On Sat, 6 Apr 2019, 13:32 Schoffelen, J.M. (Jan Mathijs), <
jan.schoffelen at donders.ru.nl> wrote:

> Hi Craig,
> There are a few open bugs about this on bugzilla.fieldtriptoolbox.org (2331
> and 2404). We are moving away from bugzilla (and try to switch more to
> github issues), but the the currently open ones still contain some
> knowledge and history that’s worth to be looked into. Moreover, their
> resolution might be documented there as well.
> I am not sure whether your old esi-e-mailaddress still works, that’s the
> one with which you are subscribed to bugzilla, but if not, I suggest that
> you update your e-mailaddress, so that you can check what has been
> documented regarding the issue you raise. Subsequently, you can work with
> us towards a solution, which eventually will end up as a pull request on
> the github repo.
>
> As a side note, I am wondering why you’d want to use ft_channelrepair on
> MEG data. I could think of the functionality being useful occasionally in
> EEG, but not in MEG.
>
> Best wishes,
>
> Jan-Mathijs
>
>
> On 5 Apr 2019, at 19:05, Craig Richter <craiggrichter at gmail.com> wrote:
>
> Hey FTers,
>
> It appears that when a data structure with missing channels is entered
> into ft_channelrepair, the function is using the input data to determine
> the sens structure. Since the data is missing channels, the sens structure
> is also missing these channels, and no interpolation occurs, but no errors
> are thrown. It states that it was successful. The work-around is to provide
> a cfg.layout, or cfg.grad to ft_channelrepair, such that ft_fetch_sens does
> not depend on the input data and returns with a full sensor array, but in
> this case, the grad info in the data is lost. This appears to be a bug,
> though http://www.fieldtriptoolbox.org/example/fixing_a_missing_sensor/
> would indicate this is the intended behaviour. Perhaps an error, or warning
> message should be generated. Also, the grad info is largely lost after
> interpolation except for chanpos and chanori. Is there no way to
> interpolate all the grad info, such that it is not lost (i.e. tra, and the
> coil data)?
>
> Any suggestions would be great!
>
> Thanks!
>
> C.
>
> Best,
>
> C.
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