Out of date information and source code in online vignette

[jamesjiadazhan]

Please follow all the steps described at https://mixomics-users.discourse.group/t/reproducible-example-to-clarify-issues/470 and next fill in the items below:

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🐞 Describe the bug:

I tried to tune the parameter for my SPLS models, but it did not work at all due to the following errors:

plot(perf.pls$Q2.total) Error in plot.window(...) : need finite 'xlim' values In addition: Warning messages: 1: In min(x) : no non-missing arguments to min; returning Inf 2: In max(x) : no non-missing arguments to max; returning -Inf 3: In min(x) : no non-missing arguments to min; returning Inf 4: In max(x) : no non-missing arguments to max; returning -Inf

This error even happened when I used the following example codes provided in the vignette:

data(liver.toxicity) X <- liver.toxicity$gene Y <- liver.toxicity$clinic

result.spls <- spls(X, Y, ncomp = 5, mode = "regression") perf.pls <- perf(result.spls, validation = 'Mfold', folds = 7, nrepeat = 10, progressBar = TRUE) plot(perf.pls$Q2.total)

Error in plot.window(...) : need finite 'xlim' values In addition: Warning messages: 1: In min(x) : no non-missing arguments to min; returning Inf 2: In max(x) : no non-missing arguments to max; returning -Inf 3: In min(x) : no non-missing arguments to min; returning Inf 4: In max(x) : no non-missing arguments to max; returning -Inf

When I tested what was in the perf.pls$Q2.total, I found nothing, as shown below:

perf.pls$Q2.total NULL

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🔍 reprex results from reproducible example including sessioninfo():

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🤔 Expected behavior:

I hope the team can fix this bug. It is frustrating that even the example codes are not working.

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💡 Possible solution:

[Max-Bladen]

Hi @jamesjiadazhan,

Some of the information in the vignette is really quite old. I'd recommend using the website. It contains all the info the vignette does and more. Also, I rewrote the entire site late last year so its fully up to date

Cheers for the heads up