[Eeglablist] Including interaction with condition with two datasets per participant

Wed Mar 26 06:11:41 PDT 2025

Hi Agata

Good to hear it moved forward, PIPE_history.txt tells you which job fails.
More information on how to use the pipeline tool here
https://urldefense.com/v3/__https://github.com/LIMO-EEG-Toolbox/limo_tools/wiki/debugging-1st-level-stats__;!!Mih3wA!AyNKkOLKbbgc7KMuLrXS1Vg0XJOqwKeM0oNkZ6qRaFq953RX5PAAnCUdrEV4cndyDLMuLf1Ab48CHT80l5__jQ$ 

Cyril

PS: group is only used for the GUI to propose options on coding group
level, it does (should) not affect 1st level analyses

On Wed, 26 Mar 2025 at 13:13, Agata Dymarska <agata.dymarska at amu.edu.pl>
wrote:

> Dear Cyril, dear all,
>
> I updated Matlab and EEGLAB to the newest versions, which did help with
> some of the problems. I was able to perform the analysis, including 2nd
> level ANOVA. However, when I tried to repeat the analysis for another set
> of variables, it failed again at 1st level. The error in the batch report
> is at this stage:
>
> "  The execution mode is session
>     The following command is going to be executed :
> psom_run_job('C:\Users\STUDY\derivatives\LIMO_ValenceReceiversStudy\limo_batch_report\ValenceReceiversStudy_LangValRel_GLM_Channels_Time_WLS\subject1\\glm.mat')
> 721-Mar-2025 13:53:05 glm    failed    (0 run / 1 fail / 2 done / 0 left)"
>
>
> The only difference between the successful and failed study was that in
> the successful one, data was initially divided into two groups. We removed
> the division by specifying "group" as "" (empty) when saving the datasets
> (before loading them into STUDY). However, for some reason the resulting
> analysis (ANOVA) still displayed a group interaction.
>
> I can see in the batch report that there is a way to display more
> information, but I'm not able to run this because I don't know what the
> JOB_NAME should be (glm or glm.mat don't work):
>
> "More infos can be found in the individual log files. Use the following command to display these logs :
>   psom_pipeline_visu('C:\Users\STUDY\derivatives\LIMO_ValenceReceiversStudy\limo_batch_report\ValenceReceiversStudy_LangValRel_GLM_Channels_Time_WLS\subject1\','log',JOB_NAME)"
>
> I'll be grateful for any advice on how to proceed.
>
> Best wishes,
> Agata
>
>
> ------------------------------
> *From:* Dr Cyril, Pernet <wamcyril at gmail.com>
> *Sent:* 17 March 2025 17:02
> *To:* Agata Dymarska <agata.dymarska at amu.edu.pl>; EEGLAB List <
> eeglablist at sccn.ucsd.edu>
> *Subject:* Re: [Eeglablist] Including interaction with condition with two
> datasets per participant
>
> Hi Agata
>
> it has not even reached any modelling or comparison, purely an issue in
> STUDY. Just to clarify, you can only have 1 dataset per session, each
> subject has 2 datasets  and you indicate those as session 1 and session
> 2. Is that correct?
>
> cyril
> > Dear Cyril,
> >
> > Thank you for you suggestion. I created a new STUDY as outlines, but I
> am still having trouble with the analysis which includes two
> datasets/sessions per participant.
> > After creating .daterp files, in the 1st level analysis, the programme
> produces errors: "couldn't find a direct match between .set and .daterp".
> It appears that the comparison of the two is not made based on participant
> name but on the order in which they are loaded, and even though they are
> loaded in chronological order, the comparisons are made between dataset
> 1-2, 1-3, 1-4, then 2-3, 2-4, etc. I'm not sure why that happens, because I
> even ensured that the subject names and dataset names are the same so there
> is no doubt which data comes from which subject. The error produced is
> pasted below:
> >
> >
> > generating temporary files, pulling relevant trials ...
> > pulling trials for
> sub-Hs481a-word_selection_receiver_renamed_ses-1_design1.set ...
> > Warning: couldn't find a direct match between .set and .daterp, loading
> C:\Users\eeg-analysis2\Study
> New\Strangers\Hs481a-word_selection_receiver_renamed_ses-01.daterp
> > making up statistical model for
> sub-Hs481a-word_selection_receiver_renamed_ses-1_design1.set ...
> > pulling trials for
> sub-Hs481a-word_selection_receiver_renamed_ses-2_design1.set ...
> > Warning: couldn't find a direct match between .set and .daterp, loading
> C:\Users\eeg-analysis2\Study
> New\Couples\Hs481a-word_selection_receiver_renamed_ses-02.daterp
> > making up statistical model for
> sub-Hs481a-word_selection_receiver_renamed_ses-2_design1.set ...
> > pulling trials for
> sub-Hs481b-word_selection_receiver_renamed_ses-1_design1.set ...
> >
> >
> > I'm not even sure whether this error has anything to do with the
> comparison of the two sessions or whether it is an earlier stage of an
> individual dataset analysis that is not working.
> > Can you please advise on this?
> >
> > Thank you,
> > Agata
> >
> >
> >
> > Hi Agata
> >
> > alternatively you can set the two sessions in STUDY. Each session with
> > language and valence. STUDY/LIMO will automatically compute the
> > difference between sessions, ie you end up with contrasts language
> > difference and valence difference. This allows setting up and ANOVA 2x2
> > on those difference (of course each effect now reflects the
> > difference/interaction with relationship which is like having an ANOVA
> > with only interaction terms). The main differences with merging are (1)
> > does not assume the same variance between sessions (2) but does not
> > allow testing main effects across sessions (although you can do the 2x2
> > in each session to check consistency of results).
> >
> > Cyril
> >
> >
> > _______________________________________________
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> --
> Dr Cyril Pernet, PhD, OHBM fellow, SSI fellow
> Neurobiology Research Unit,
> Building 8057, Blegdamsvej 9
> Copenhagen University Hospital, Rigshospitalet
> DK-2100 Copenhagen, Denmark
>
> wamcyril at gmail.com
>
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-- 
-- 

-- 
Dr Cyril Pernet,
Neurobiology Research Unit
Copenhagen University Hospital, Rigshospitalet
Building 8057, Blegdamsvej 9
DK-2100 Copenhagen, Denmark
wamcyril at gmail.comhttps://cpernet.github.io/https://orcid.org/0000-0003-4010-463