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Dear Evelyne,
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<div class="">Hmmm, I think that your question is a bit out of scope for the fieldtrip discussion list, because your problem seems constrained to the a problem with the PhysIO toolbox (which uses SPM, which uses Fieldtrip). It’s great that you already have
identified that calling ft_definetrial directly works fine, which makes it unlikely that there’s a bug in the fieldtrip codebase.</div>
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</div>
<div class="">I have never worked with this PhysIO toolbox myself, and the combination with the matlabbatch functionality of SPM does not make the detective work straightforward. </div>
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</div>
<div class="">My first hunch would be that the (possibly hardcoded) definition of the eventtype/eventvalue is incorrect for your data. I checked the TAPAS code on github, and found the following function: <a href="https://urldefense.com/v3/__https://github.com/translationalneuromodeling/tapas/blob/master/PhysIO/code/readin/tapas_physio_read_physlogfiles_brainproducts.m__;!!HJOPV4FYYWzcc1jazlU!5H90oiOLBBCjs7OHHJjplyfnTinW865-Zaby40nl4EbZ9Bda9wsf7NqLgE9m8mYrIAP9JANXm36nW5J0LyH6YNuL50-nLh9h6Ob8-w$" class="">https://github.com/translationalneuromodeling/tapas/blob/master/PhysIO/code/readin/tapas_physio_read_physlogfiles_brainproducts.m</a> ,
which looks as if this is the one where things might go wrong. Specifically, starting from line 54 in said function, the eventvalue that defines the ’trials’ within PhysIO is defined hardcoded as ‘R128’, which does not seem to be present in your data.</div>
<div class=""><br class="">
</div>
<div class="">Could this be what is causing your issue? Given that the eventvalue is hardcoded (i.e. non configurable as an option in your matlabbatch) you can not get it to run without making a change to your version of the code. I would assume that - if this
is indeed the cause of the problem - the change of ‘R128’ into ‘R 1’ would be sufficient, and that this will work for all of your recorded subjects. A more principled solution would be to liaise with the PhysIO developers (or to submit a Pull Request) to
discuss the possibility of making the eventvalue for the brainproducts data configurable.</div>
<div class=""><br class="">
</div>
<div class="">If things are unclear, or on the off chance that my suggestions don’t address the problem, please feel free to drop by at the office (01.158) with some data, code and versnaperingen, so that we can have a look at it together.</div>
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<div class="">Best wishes,</div>
<div class="">Jan-Mathijs</div>
<div class=""><br class="">
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</div>
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<div><br class="">
<blockquote type="cite" class="">
<div class="">On 9 Jun 2023, at 15:03, Evelyne Fraats 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="">
Dear all,<o:p class=""></o:p></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">My name is Evelyne and I am just started to explore fieldtrip.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">I use fieldtrip to define trials in physiological recordings to estimate physiological regressors for MRI preprocessing.<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">However, when using the physio toolbox, no trials are detected within my data.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">When I run the separate ft_definetrial function, I get trials, but I seem to fail to include this in my matlabbatch.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">This is my output with error message:<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">evaluating trial function 'ft_trialfun_general'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">reading the header from '/home/affneu/evefra/Spinalcord/data/Physio/subx19_new_threat_SPINAL.vhdr'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">reading the events from '/home/affneu/evefra/Spinalcord/data/Physio/subx19_new_threat_SPINAL.vhdr'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">found 169 events<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">created 20 trials<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">the call to "ft_definetrial" took 0 seconds and required the additional allocation of an estimated 0 MB<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Item model: No field(s) named<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">event<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">------------------------------------------------------------------------<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">09-Jun-2023 15:02:40 - Running job #41<o:p class=""></o:p></span></div>
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<span lang="EN-GB" class="">------------------------------------------------------------------------<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">09-Jun-2023 15:02:40 - Running 'TAPAS PhysIO Toolbox'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Warning: cfg.trialdef.eventtype='?' is deprecated, please specify cfg.trialfun='ft_trialfun_show'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">evaluating trial function 'ft_trialfun_show'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">reading the events from '/home/affneu/evefra/Spinalcord/data/Physio/subx19_new_threat_SPINAL.vhdr'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">the following events were found in the data<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">event type: 'New Segment'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">with event values:<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">event type: 'Response'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">with event values: 'R 1'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">event type: 'Stimulus'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">with event values: 'S 1' 'S 97'<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">no trials have been defined yet, see FT_DEFINETRIAL for further help<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">found 169 events<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">the call to "ft_definetrial" took 0 seconds and required the additional allocation of an estimated 0 MB<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">evaluating trial function 'ft_trialfun_general'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">reading the header from '/home/affneu/evefra/Spinalcord/data/Physio/subx19_new_threat_SPINAL.vhdr'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">reading the events from '/home/affneu/evefra/Spinalcord/data/Physio/subx19_new_threat_SPINAL.vhdr'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">09-Jun-2023 15:02:41 - Failed 'TAPAS PhysIO Toolbox'<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Error using ft_definetrial<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">no trials were defined, see FT_DEFINETRIAL for help<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">The following modules did not run:<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Failed: TAPAS PhysIO Toolbox<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Error using MATLABbatch system<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Job execution failed. The full log of this run can be found in MATLAB command window, starting with the lines (look for the line showing the<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">exact #job as displayed in this error message)<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">------------------<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Running job #41<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">------------------<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">This is my code:<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">if physio_regressor == 1<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %cd /home/affneu/evefra/Spinalcord/data/Physio/<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %define log input<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> data_path_physio = fullfile(data_path, 'Physio');<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> data_path_physio_sub = dir(fullfile(data_path_physio, sprintf('subx%d*threat*.eeg', sub))) ; %CHANE FORMAT <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = {data_path_physio_sub.name};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = filenames'; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = {data_path_physio_sub.folder};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = filefolder';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filename_folder = cellfun(@(folder, name) fullfile(folder, name), filefolder, filenames, 'UniformOutput', false);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %define vhdr<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> data_path_physio_sub = dir(fullfile(data_path_physio, sprintf('subx%d*threat*.vhdr', sub))) ; %CHANE FORMAT <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = {data_path_physio_sub.name};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = filenames'; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = {data_path_physio_sub.folder};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = filefolder';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filename_folder_vhdr = cellfun(@(folder, name) fullfile(folder, name), filefolder, filenames, 'UniformOutput', false);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %define vmkr<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> data_path_physio_sub = dir(fullfile(data_path_physio, sprintf('subx%d*threat*.vmrk', sub))) ; %CHANE FORMAT <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = {data_path_physio_sub.name};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filenames = filenames'; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = {data_path_physio_sub.folder};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filefolder = filefolder';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> filename_folder_vmrk = cellfun(@(folder, name) fullfile(folder, name), filefolder, filenames, 'UniformOutput', false);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %define trials<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg = [];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.headerfile = char(filename_folder_vhdr);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.eventfile = char(filename_folder_vmrk);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.trialdef.eventtype = 'Stimulus'; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.trialdef.eventvalue = 'S 1'; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.trialdef.prestim = 0; <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> cfg.trialdef.poststim = 0;<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %cfg.trialfun = 'ft_trialfun_show';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> trials = ft_definetrial(cfg);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> %run regressor estimation<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> <span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> clear matlabbatch<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.save_dir = {fullfile(data_path_tos_brain,'physio_regressors')};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.vendor = 'BrainProducts';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.cardiac = filename_folder;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.respiration = filename_folder;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.scan_timing = {''};<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.sampling_interval = [];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.relative_start_acquisition = 0;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.log_files.align_scan = 'last';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nslices = 44;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.NslicesPerBeat = [];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.TR = 3.39;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Ndummies = 0;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nscans = 147;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.onset_slice = 1;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.time_slice_to_slice = [];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sqpar.Nprep = [];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.scan_timing.sync.nominal = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.modality = 'ECG';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.filter.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.min = 0.4;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.file = 'initial_cpulse_kRpeakfile.mat';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.initial_cpulse_select.auto_matched.max_heart_rate_bpm = 90;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.cardiac.posthoc_cpulse_select.off = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.respiratory.filter.passband = [0.01 2];<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.preproc.respiratory.despike = false;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.output_multiple_regressors = 'multiple_regressors.txt';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.output_physio = 'physio.mat';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.orthogonalise = 'none';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.censor_unreliable_recording_intervals = false;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.c = 3;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.r = 4;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.retroicor.yes.order.cr = 1;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.rvt.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.hrv.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.noise_rois.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.movement.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.other.no = struct([]);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.verbose.level = 2;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.verbose.fig_output_file = '';<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.verbose.use_tabs = false;<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> matlabbatch{1}.spm.tools.physio.model.event.trials = trials.trl(:,1);<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> spm_jobman('run', matlabbatch)<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""> end<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">If anybody has some tips, it would be greatly appreciated.<o:p class=""></o:p></span></div>
<div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" class="">Best,<br class="">
Evelyne<o:p class=""></o:p></span></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="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!8K61M79uymMxxdjPKVyfGBtnWB-RCxy2i6Q6ZvuyiceE0VKbY6x6jPj7xtCmtq14ZNS3x6uHwZAy4xvdqZ3o72A8YRrwcTyAUBGzyA$" style="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!8K61M79uymMxxdjPKVyfGBtnWB-RCxy2i6Q6ZvuyiceE0VKbY6x6jPj7xtCmtq14ZNS3x6uHwZAy4xvdqZ3o72A8YRrwcTyAUBGzyA$</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>
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