القائمة
Managing the opt/dotfiles standalone git clone — git state, committing changes, and license/metadata updates. Use when making changes to opt/dotfiles/ that need to be committed, or when the clone is in a detached HEAD state.
التثبيت باستخدام Codex أو Claude انسخ هذا Prompt والصقه في Codex أو Claude أو مساعد آخر ليراجع صفحة Skill ويثبّتها لك.
استنادا إلى تصنيف SOC المهني
Acid Genomics R package development conventions — per-project air.toml, global ~/.lintr only, roxygen2 8.x @importFrom split, S4 linter tuning, AcidDevTools::check() gate. Use when writing or checking an acidgenomics R package, configuring air/lintr, or fixing roxygen/lint failures.
koopa R package release — cloud-native S3 + CloudFront, acidgenomics profile, koopa app r publish/reindex/archive, sonoma-arm64 binaries, pre-release AcidDevTools::check() gate. Use when releasing, publishing, reindexing, or archiving an Acid Genomics R package.
PowerShell (pwsh 7+) activation architecture, starship integration, and color-mode sync in koopa. Use when writing or debugging lang/powershell/ files, editing activate-*.ps1 functions, adding prompt-tool support (starship, zoxide), integrating OS appearance detection, or porting shell logic from bash/zsh/fish to PowerShell.
koopa AWS environment configuration — the gitignored <koopa-root>/.env, load_dotenv()/aws_account_id()/koopa_s3_bucket() helpers in aws.py, required vars, bucket naming, lazy-eval rule. Use when adding an AWS secret, wiring a bucket/CloudFront ID, or debugging a missing AWS env var in release tooling.
How koopa manages home dotfiles via chezmoi — source-of-truth layout, the explicit --source flag, template-vs-generator ordering, XDG path derivation in templates, symlink_ source files for App Support bridges, diagnosing chezmoi status contamination from stale env, and the correct re-run command. Use when editing a dotfile, working in opt/dotfiles/chezmoi/, debugging a file that reverts on chezmoi apply, wiring a chezmoi template, or bridging XDG paths to macOS Library/Application Support.
How koopa propagates and applies dark/light color mode across SSH, tmux, shells, and chezmoi-rendered theme files. Use when debugging wrong-palette or stale-theme symptoms after a dark↔light flip, working on color-mode sync jobs or watchers, editing the chezmoi color-mode apply path, or investigating why bat/starship/delta renders the wrong theme while fzf/LS_COLORS look correct.
| name | koopa-dotfiles |
| description | Managing the opt/dotfiles standalone git clone — git state, committing changes, and license/metadata updates. Use when making changes to opt/dotfiles/ that need to be committed, or when the clone is in a detached HEAD state. |
opt/dotfiles/ is a standalone git clone of github.com/acidgenomics/dotfiles,
not a submodule of koopa. It is cloned by koopa install dotfiles and pinned at a
specific commit (blobless partial clone with partialclonefilter = blob:none).
The chezmoi source tree lives inside it at opt/dotfiles/chezmoi/. See skill
koopa-chezmoi-dotfiles for editing dotfiles via chezmoi.
koopa install pins the clone at a specific commit, leaving it in detached HEAD
state. Any git commit from a detached HEAD lands on no branch and will be
unreachable after a git checkout.
Before committing any change inside opt/dotfiles/, always check:
cd opt/dotfiles
git status # "(HEAD detached at <sha>)" means detached
git checkout main # re-attach to main before committing
Then commit normally and push to origin (github.com/acidgenomics/dotfiles).
The repo carries a single top-level LICENSE file (no extension). There are no
per-file SPDX headers or package-metadata license fields.
In June 2026 the license was switched from AGPL-3.0 to Apache-2.0, matching koopa. The Apache-2.0 text is the verbatim stock text (APPENDIX placeholders left unfilled); the README carries the attribution line:
Apache-2.0 — Copyright 2016 Acid Genomics LLC — see [LICENSE](LICENSE).
To verify no AGPL traces remain: grep -i "affero\|agpl" opt/dotfiles/LICENSE
should return nothing.