Update CI to R 4.6 / Bioc 3.23 and bump all GitHub Actions

[zeehio]

Summary

CI on devel has been failing (and hadn't run successfully in ~10 months before that) with a LaTeX error while rebuilding Vig02-handling-metadata-and-annotations.Rmd:

! LaTeX Error: No counter 'none' defined.

Root cause, now confirmed: pandoc >=3.8.1 changed how it renders uncaptioned Markdown tables to LaTeX — it now emits \def\LTcaptype{none} (a longtable/caption-package directive meaning "don't use a float counter for this caption"). BiocStyle's LaTeX template never predefines a counter literally named none, so LaTeX errors out the first time an uncaptioned table appears. Bisected across pandoc releases: 3.8 builds fine, 3.8.1 is the first broken version, and it's still broken as of the latest release (3.10) — so this isn't a "wait for pandoc to fix it" situation.

Minimal reproduction (no AlpsNMR code involved at all — just BiocStyle's standard pdf_document output format and a single uncaptioned Markdown table):

---
output:
  BiocStyle::pdf_document:
    latex_engine: lualatex
---

| File type | Suggested function     |
| ----------| ---------------------- |
| CSV       | `readr::read_csv()`    |

Fails identically with stock BiocStyle 2.40.0 + pandoc >=3.8.1.

Changes

• Bioconductor / R version: RELEASE_3_21 (R 4.5, Bioc 3.21) → RELEASE_3_23 (R 4.6, Bioc 3.23), the current Bioconductor release. (This alone does not fix the LaTeX error — see below.)
• Install zeehio/BiocStyle@my-fixes in the CI workflow, before the dependency-installation pass that builds vignettes. That branch predefines the none counter in BiocStyle's LaTeX template (in the correct file, default-2.8.tex, at the correct location — before $body$). This is a temporary pin until Bioconductor/BiocStyle#116 lands upstream.
• GitHub Actions bumped to current major versions:
  • actions/checkout: v4 → v6
  • actions/upload-artifact: @master (an unpinned, mutable branch ref) → v7, and the uploaded artifact name now reflects the actual matrix R/Bioc version instead of a hardcoded stale RELEASE_3_19-r-4.4 string
  • docker/build-push-action: v1 → v7
  • actions/cache (v4) and r-lib/actions (v2) were already current, left unchanged

This branch also includes a merge of Bioconductor's own devel history (github.com/bioc/AlpsNMR), which had drifted ~10 months ahead with its own automated version-bump commits (4.11.1 → 4.15.0) that hadn't been synced back to this repo.

Test plan

• Bisected the pandoc regression range (3.8 works, 3.8.1 first fails, 3.10 still fails)
• Reproduced with a minimal standalone reprex against stock BiocStyle 2.40.0
• Verified zeehio/BiocStyle@my-fixes fixes the reprex and the real vignette against pandoc 3.1.3, 3.8.2.1, and 3.10 (pandoc 3.8.1 itself still fails with a narrower, distinct empty-counter-name variant of the bug — that release was quickly superseded and isn't covered by this fix)
• Actual CI run on this PR (pending) — the real end-to-end validation