… files

Add .gitignore to repo (was untracked) and untrack PIPELINE_RUN_SUMMARY.md.
Local-only working docs are no longer shared via the repo.

Previous build (run 28199158988) failed because BiocManager did not pull
transitive deps for BSgenome.Hsapiens.UCSC.hg38, EnsDb.Hsapiens.v86, and
TFBSTools (missing BSgenome, CNEr, rtracklayer, ensembldb). install_github
for Azimuth then returned success while silently skipping Azimuth itself,
failing only at the library() smoke test ~140s in.

Changes:
- Pin BiocManager release to 3.18 (matches R 4.3).
- Explicitly install base Bioc deps (Biostrings, GenomicRanges,
  GenomicFeatures, Rsamtools, rtracklayer, BSgenome, ensembldb,
  AnnotationFilter, AnnotationDbi, CNEr, TFBSTools, JASPAR2020,
  motifmatchr) with dependencies=TRUE before higher-level packages.
- Assert all required Bioc packages installed before satijalab/azimuth.
- Assert Azimuth itself installed (fail fast instead of at smoke test).

Allow active development on dev to produce sha-tagged images without
merging to main first.

Build #28207585271 (1h23m) failed because rocker/r-ver:4.3.2 lacked
libbz2-dev/liblzma-dev/zlib1g-dev (Rhtslib/Rsamtools build failed,
cascading to rtracklayer/BSgenome/GenomicFeatures/ensembldb/TFBSTools/
etc.) and defaulted to C++11 (glmGamPoi/RcppArmadillo need C++14).

bioconductor/bioconductor_docker:RELEASE_3_18 provides R 4.3.x with
Bioc 3.18 preconfigured, all Bioc system deps, and Makevars set for
the C++ standards modern Bioc packages require. BiocManager is
pre-pinned to 3.18 so no explicit version call needed.

Also add intermediate assertion after Bioc wave 1 so cascade failures
stop at the right step instead of at the final Azimuth check.

…253578014)