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Post-merge tutorial fixes: heatmap print() + ligand-activity ordering + CI dependencies - #4

Merged

Huangy57 merged 11 commits into

mainfrom

huangy57/contextnet-postmerge-fixes

May 24, 2026

Merged

Post-merge tutorial fixes: heatmap print() + ligand-activity ordering + CI dependencies#4
Huangy57 merged 11 commits into
mainfrom
huangy57/contextnet-postmerge-fixes

Commits on May 22, 2026
- notebooks: print() bare make_heatmap_ggplot so ligand-target heatmaps display
  
  Huangy57
  and
  claude
  committed
  bc5435b
- CI: install only hard deps so checks don't try to clone private ccflowR
  
  Huangy57
  and
  claude
  committed
  fbe8455
- notebooks: order ligand-activity-score heatmap so the highest score is on top
  
  Huangy57
  and
  claude
  committed
  ae666d1
- DESCRIPTION: drop private ccflowR from Suggests/Remotes so CI can resolve deps
  
  Huangy57
  and
  claude
  committed
  6f8497c
- Revert CI dependencies:'"hard"' workflow change — ccflowR removal is the real fix
  
  Huangy57
  and
  claude
  committed
  3842bea
- CI: keep ccflowR in Suggests, drop only its Remote; install public deps for check
  
  Huangy57
  and
  claude
  committed
  811926c
- CI: drop Seurat from check deps (unused in CI, broke macOS/Windows/R4.2 resolve)
  
  Huangy57
  and
  claude
  committed
  b9e73fe
- CI: drop `needs: check`/`coverage` so the solve skips the private ccflowR Suggests
  
  Huangy57
  and
  claude
  committed
  a9387bf
- Revert DESCRIPTION + CI workflow to main; keep only the two notebook fixes
  
  Huangy57
  and
  claude
  committed
  f79c89d
Commits on May 24, 2026
- CI: use SETTYLAB_CI_PAT so pak can resolve the private ccflowR dependency
  
  Huangy57
  and
  claude
  committed
  b83249f
- CI: drop R 4.2 from matrix — package requires R >= 4.4 via SeuratObject 5 / Matrix
  
  Huangy57
  and
  claude
  committed
  8e2ad16

Commits

Commits on May 22, 2026

Commits on May 24, 2026