<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
</head>
<body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">
Hi Marta,
<div class=""><br class="">
</div>
<div class="">Just to follow up a bit more: I forgot the context that you are working with the HCP restingstate data. There is no reason to assume that the consecutive 2-second snippets represent continuous time to begin with. Each trial’s time axis starts
with time point ‘0’, and there’s no ’sampleinfo’ field in the data structure. So this alone is a very strong NONO for trying to glue the snippets together. Then, in addition to this, the preprocessed data has been downsampled from the original ~2kHz sampling
rate, which suggests the application of an anti aliasing lowpassfilter to have been applied (possibly to the individual snippets), it’s an extra NONO agains glueing.</div>
<div class=""><br class="">
</div>
<div class="">As a final note: FOOOF is also implemented in FieldTrip.</div>
<div class=""><br class="">
</div>
<div class="">Best wishes,</div>
<div class="">Jan-Mathijs</div>
<div class=""><br class="">
</div>
<div class="">
<div><br class="">
<blockquote type="cite" class="">
<div class="">On 9 Mar 2023, at 12:19, Marta Stojanović via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl" class="">fieldtrip@science.ru.nl</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="WordSection1" style="page: WordSection1; caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Hi Jan-Mathjis,<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Thank you for your reply, these are very helpful notes.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Indeed, since my pipeline runs through without these warnings when I do not redefine the trials, the issue should be with the steps that attempt to create longer trials from the shorter resting-state trials. Yet, the redefined data
does not (at least explicitly) include NaN values, and the outputted structs for these steps look as they should, with the relevant fields and no explicit NaNs.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Exactly as you suggested, when digging into the issue a bit further, it looks like NaN values are first introduced when computing the covariance in ft_timelockanalysis. When running the ft_timelockanalysis function without the covariance
configuration I do not receive a warning about NaNs, but I need the covariance for later steps so I of course cannot omit this configuration nor would this solve the issue.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Exactly as you pointed out again, the NaNs in the covariance seem to then affect the rest of the steps downstream including computing the spatial filters and the ft_virtualchannel function.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">To answer your question: I want to create longer 10-second trials from the 2-second trials because I need a longer trial length for the analyses I later conduct. I’m running power spectral density analyses, fitting oscillations and
one-over-f (FOOOF) in Python, and later entropy analyses, for which 2-second trials simply aren’t long enough to generate “decent” results or to visualize results appropriately.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">I know there are multiple ways to redefine trial length, and I have tried several approaches (such as defining cfg.begsample/endsample, cfg.continuous, and reshaping the original data by hand before passing it to ft_redefinetrial).
My main question would therefore be how to ensure that the time axes of the original small snippets match up without gaps when redefining, as I’m sure there must be a way. I check the trial, label, and time fields for the outputs when redefining the trials
and, again, all looks as it should, without any NaNs that seem to “fill the gaps”.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">And an important final note would be then that the NaNs are exactly introduced in the covariance step rather than anywhere earlier (no NaNs in the data itself before or after timelocking), so something seems to be going wrong when
computing the covariance.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Thanks a lot again,<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Best,<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">Marta<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class=""><o:p class=""> </o:p></span></div>
<div style="border-style: solid none none; border-top-width: 1pt; border-top-color: rgb(181, 196, 223); padding: 3pt 0cm 0cm;" class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span style="font-size: 12pt;" class="">From:<span class="Apple-converted-space"> </span></span></b><span style="font-size: 12pt;" class="">fieldtrip <<a href="mailto:fieldtrip-bounces@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip-bounces@science.ru.nl</a>>
on behalf of "Schoffelen, J.M. (Jan Mathijs) via fieldtrip" <<a href="mailto:fieldtrip@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Reply to:<span class="Apple-converted-space"> </span></b>FieldTrip discussion list <<a href="mailto:fieldtrip@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Date:<span class="Apple-converted-space"> </span></b>Thursday, 9. March 2023 at 09:17<br class="">
<b class="">To:<span class="Apple-converted-space"> </span></b>FieldTrip discussion list <<a href="mailto:fieldtrip@science.ru.nl" class="">fieldtrip@science.ru.nl</a>><br class="">
<b class="">Cc:<span class="Apple-converted-space"> </span></b>"Schoffelen, J.M. (Jan Mathijs)" <<a href="mailto:janmathijs.schoffelen@donders.ru.nl" class="">janmathijs.schoffelen@donders.ru.nl</a>><br class="">
<b class="">Subject:<span class="Apple-converted-space"> </span></b>Re: [FieldTrip] Warning with redefining data<o:p class=""></o:p></span></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Hi Marta,<span class="Apple-converted-space"> </span><o:p class=""></o:p></div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
You say: "I’ve run a loop over the trial field in the output of the ft_timelockanalysis as well as ft_preprocessing to check for NaNs in my 10-second data structs, but I didn’t find any when running this loop.”<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-US" class="">This is at odds with your earlier statement that you got a warning that the data contains NaNs. </span><o:p class=""></o:p></div>
</div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The NaNs have probably been introduced in your attempt to ‘glue together’ the 2-second epochs into longer snippets of 10 seconds. If the time axes of the original small snippets does not entirely match up (i.e. if there were gaps) then ft_redefinetrial might
have filled those gaps with NaNs, while creating the 10 second snippets.<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
FieldTrip functions that operate on data containing NaNs often gracefully ignore them, but in many occasions the NaNs will affect the output. For instance (as is likely in your case), I think that the computation of the covariance in ft_timelockanalysis is
not NaN-aware. This may cause downstream problems, when you use an all-NaN covariance matrix for the computation of spatial filters, which consequently will by construction also be all-NaN, as will be the virtual channel data that you try to derive from it. <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The relevant question to ask here is: why do you want to stitch together the 2 second snippets of data?<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Good luck and best wishes,<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Jan-Mathijs<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<br class="">
<br class="">
<o:p class=""></o:p></div>
<blockquote style="margin-top: 5pt; margin-bottom: 5pt;" class="">
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
On 7 Mar 2023, at 21:09, Marta Stojanović via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl" style="color: blue; text-decoration: underline;" class="">fieldtrip@science.ru.nl</a>> wrote:<o:p class=""></o:p></div>
</div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div class="">
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Hi Fieldtrip community, <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I’m reaching out with a question about a warning I encountered when redefining trial length from resting-state MEG data using ft_definetrial and ft_redefine trial.<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Namely, I redefined the length of input data from a resting-state MEG file from two-second trials to longer trials of 10-second length. I successfully used the ft_definetrial and ft_redefinetrial functions to do so, using the ‘trl’ field from the struct where
I define the trial to input as a configuration for the ft_redefinetrial function.<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
With the two-second length I have 144 trials from the data, while with the ten-second length there are 28 trials.<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The pipeline and structs look like the following: <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
%% define trials with 10-second length <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
clear ten_seconds;<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg = [];<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.dataset = restfile; % refers to resting-state file of a single subject<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.trialdef.beginning = 0; % start at the beginning of the recording<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.trialdef.length = 10; % 10-second trial length<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.trialdef.overlap = 0; % no overlap between trials<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
ten_seconds = ft_definetrial(cfg);<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
%% redefine trials to 10 seconds<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
clear redef_data;<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg = [];<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.trl = ten_seconds.trl; % use trl from defined trial<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
redef_data = ft_redefinetrial(cfg,data);<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
%% preprocess redefined 10-second trials<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
clear ten_sec_trls;<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg = [];<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.demean = 'yes';<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg.baselinewindow = 'all';<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
% cfg.baselinewindow = [0 1018];<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
ten_sec_trls = ft_preprocessing(cfg,redef_data);<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
These are the associated structs with their fields:<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
redef_data = <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
fsample: 508.6275<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
grad: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
label: {244×1 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
hdr: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
trial: {1×28 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
time: {1×28 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
trialinfo: [28×2 double]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
sampleinfo: [28×2 double]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
ten_sec_trls = <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
fsample: 508.6275<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
grad: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
hdr: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
trialinfo: [28×2 double]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
trial: {1×28 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
time: {1×28 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
label: {244×1 cell}<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
cfg: [1×1 struct]<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
When I plug the redefined data (i.e., with redefined length, ten_sec_trls) into ft_timelockanalysis, I receive the<span class="apple-converted-space"> </span><span lang="EN-US" class="">following<span class="apple-converted-space"> </span></span>warning:<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Warning: data contains NaN values <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_preproc_polyremoval at line 75<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_preproc_baselinecorrect at line 52<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_timelockanalysis at line 174<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
the call to "ft_selectdata" took 0 seconds and required the additional allocation of an estimated 22 MB<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Warning: inconsistent sampleinfo <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In makessense at line 115<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_datatype_timelock at line 72<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_checkdata at line 479<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
In ft_timelockanalysis at line 207<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I’ve run a loop over the trial field in the output of the ft_timelockanalysis as well as ft_preprocessing to check for NaNs in my 10-second data structs, but I didn’t find any when running this loop.<span class="apple-converted-space"><span lang="EN-US" class=""> </span></span><span lang="EN-US" class="">I’ve
checked the relevant lines from the Fieldtrip functions but couldn’t find a way to solve the warning from there.<span class="apple-converted-space"> </span></span>I’ve also checked the sampleinfo, but I sense the warning may be due to the sampleinfo in the
configuration being inconsistent with the actual data due to the removal of non-MEG channels from the sampleinfo in the resting file.<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The warning message might influence later analyses, so I’m wondering if anyone has faced the same and/or has an explanation. <o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Thanks a lot in advance!<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""></o:p></div>
</div>
<div class="">
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
All the best,<br class="">
Marta<o:p class=""></o:p></div>
</div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span style="font-size: 10.5pt; font-family: Helvetica;" class="">_______________________________________________<br class="">
fieldtrip mailing list<br class="">
</span><a href="https://urldefense.com/v3/__https://eur04.safelinks.protection.outlook.com/?url=https*3A*2F*2Fmailman.science.ru.nl*2Fmailman*2Flistinfo*2Ffieldtrip&data=05*7C01*7Cmarta.stojanovic*40student.uva.nl*7Ca176944561f24559cdde08db2076b219*7Ca0f1cacd618c4403b94576fb3d6874e5*7C0*7C0*7C638139466402430326*7CUnknown*7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0*3D*7C3000*7C*7C*7C&sdata=OsJDvoBFn3F3sGMfA0o9ij70Gs0uIamb0T4nX*2FurMJk*3D&reserved=0__;JSUlJSUlJSUlJSUlJSUlJSUlJSUlJSU!!HJOPV4FYYWzcc1jazlU!-2PB3F72YfAhGO8MRm7edBkmsxtIIj1iHidGe-fn3vBb24hJrp61lSH--nnDL8k83-HbawlwfBwoEkjHHo0Q-aac2JFeVJcIuijxiFw$" style="color: blue; text-decoration: underline;" class=""><span style="font-size: 10.5pt; font-family: Helvetica;" class="">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</span></a><span style="font-size: 10.5pt; font-family: Helvetica;" class=""><br class="">
</span><a href="https://urldefense.com/v3/__https://eur04.safelinks.protection.outlook.com/?url=https*3A*2F*2Furldefense.com*2Fv3*2F__https*3A*2F*2Fdoi.org*2F10.1371*2Fjournal.pcbi.1002202__*3B!!HJOPV4FYYWzcc1jazlU!44dPKLWAx3oGspX-Q-IZx8b_gfPmQbTd45nbdyM61ROZgOiO2314lg4aY5eGcvDpKtQW3t1ilWOQcQ56Yd02ltXfOme3MNrQw0Ahfg*24&data=05*7C01*7Cmarta.stojanovic*40student.uva.nl*7Ca176944561f24559cdde08db2076b219*7Ca0f1cacd618c4403b94576fb3d6874e5*7C0*7C0*7C638139466402430326*7CUnknown*7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0*3D*7C3000*7C*7C*7C&sdata=SSG4qTaXpWJjWwF6LzGTFa1t*2BJwucoKKkAla2GnPI8o*3D&reserved=0__;JSUlJSUlJSUlJSUlJSUlJSUlJSUlJSUlJSUlJSU!!HJOPV4FYYWzcc1jazlU!-2PB3F72YfAhGO8MRm7edBkmsxtIIj1iHidGe-fn3vBb24hJrp61lSH--nnDL8k83-HbawlwfBwoEkjHHo0Q-aac2JFeVJcIW-6Dbs4$" style="color: blue; text-decoration: underline;" class=""><span style="font-size: 10.5pt; font-family: Helvetica;" class="">https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!44dPKLWAx3oGspX-Q-IZx8b_gfPmQbTd45nbdyM61ROZgOiO2314lg4aY5eGcvDpKtQW3t1ilWOQcQ56Yd02ltXfOme3MNrQw0Ahfg$</span></a><o:p class=""></o:p></div>
</div>
</blockquote>
</div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<br class="">
<br class="">
<o:p class=""></o:p></div>
</div>
<span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">_______________________________________________</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">fieldtrip
mailing list</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" style="color: blue; text-decoration: underline; font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class="">
<a href="https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!5Ssql4vDlsZiezE-aJjMUmsU1rVpv6_N7yiWIgxiLmu93eiHASjcyUykgLf95Pi_Xd3fpn-Ak1lAynNEg_T7cVNRz6uXHl4OoOH8FQ$" style="color: blue; text-decoration: underline; font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!5Ssql4vDlsZiezE-aJjMUmsU1rVpv6_N7yiWIgxiLmu93eiHASjcyUykgLf95Pi_Xd3fpn-Ak1lAynNEg_T7cVNRz6uXHl4OoOH8FQ$</a><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class=""></span></div>
</blockquote>
</div>
<br class="">
</div>
</body>
</html>