Missing items from reference/index.html

[wviechtb]

I am running into a very strange problem with the new 2.0 version. Essentially, some of the help pages are not listed under reference/index.html even though they have been rendered and they are also specified to be shown in _pkgdown.yml. See here:

https://wviechtb.github.io/metafor/reference/index.html#plots

The Plots section in _pkgdown.yml includes several other items:

https://github.com/wviechtb/metafor/blob/master/_pkgdown.yml#L87

But they don't show up in the index even though they have been rendered; for example:

https://wviechtb.github.io/metafor/reference/labbe.html

This wasn't a problem before the update. The old pkgdown reference/index.html can be found here:

https://github.com/wviechtb/metafor/blob/17586b90428e7a17c772b0b09a0995bae870ef28/docs_old/reference/index.html#L177

and this includes all of the items.

As far as I can tell, this only pertains to some of the items in the Plots section. Everything else is there. I have tried to remove some items from the Plots section in _pkgdown.yml to figure out if one of these items is the culprit but have not been able to narrow things down. Also, rendering with or without bootstrap: 5 makes no difference.

[hadley]

Note to self: compare https://wviechtb.github.io/metafor/reference/index.html#plots
to https://github.com/wviechtb/metafor/blob/master/_pkgdown.yml#L91-L107

[wviechtb]

Okay, after a lot of trial and error, I have noticed this. If I rearrange the Plots section, so that it looks like this:

    contents:
      - funnel
      - regplot
      - baujat
      - labbe
      - radial
      - llplot
      - gosh
      - plot.gosh.rma
      - plot.rma
      - plot.cumul.rma
      - plot.infl.rma.uni
      - plot.profile.rma
      - plot.rma.uni.selmodel
      - starts_with("qqnorm")
      - starts_with("forest")
      - starts_with("addpoly")

then everything shows up in reference/index.html. In other words, if I move starts_with("forest") and starts_with("addpoly") to the end, then this problem disappears. I have no idea why the order matters.

Edit: This also works:

    contents:
      - funnel
      - forest
      - forest.default
      - forest.rma
      - forest.cumul.rma
      - addpoly
      - addpoly.default
      - addpoly.rma
      - regplot
      - baujat
      - labbe
      - radial
      - llplot
      - gosh
      - plot.gosh.rma
      - plot.rma
      - plot.cumul.rma
      - plot.infl.rma.uni
      - plot.profile.rma
      - plot.rma.uni.selmodel
      - starts_with("qqnorm")

that is, getting rid of the starts_with() for forest and addpoly and listing the items manually. So maybe this helps to narrow things down?

Edit 2: A further observation. For starts_with("qqnorm"), all of the items are actually part of the same help page: https://github.com/wviechtb/metafor/blob/master/man/qqnorm.rma.Rd But with forest and addpoly, these are actually spread across different help pages (e.g., see: https://github.com/wviechtb/metafor/tree/master/man). And maybe that is causing some kind of problem.

[wviechtb]

Thanks for looking into this. For the moment, I have rebuilt the docs with the fix where I list the items individually and not use starts_with("forest") and starts_with("addpoly"). Will try to go back to using starts_with() once this fix is pushed through.