.gitignore

# build artifacts the scripts/build_ecoli_pangenome_*.sh tutorials write into the
# repo root (ecoli_pangenome_build/, ecoli_cactus_ava.paf, ...). Anchored:
# unanchored it also swallowed website/static/img/**/ecoli_*.png, so a new
# tutorial figure silently never got committed.
/ecoli_*
website/static/video
scripts/__pycache__
**/.env
**/node_modules/
**/.vscode/
yarn-error.log
*.swp
*.swo
.DS_Store
lint.log
.eslintcache
.idea
**/umd
yalc.lock
.yalc
**/package-lock.json
**/__diff_output__/
**/dist/
**/esm/
**/nextstrain-demos-data/
lerna-debug.log
.yarn
.yarnrc
*.tsbuildinfo
.aider*
*.cpuprofile
test_data/soa4
*.tgz
**/.wgsl-hash
test/data
*.log
.cache/
website/.astro/

# generated each build/dev start with the current git hash
products/jbrowse-web/src/buildInfo.ts

# Graph test data - generated and large
test_data/chr20_region.gfa
test_data/chr20_region*.bed.gz
test_data/chr20_region*.bed.gz.tbi
test_data/chr20_region.seglens.bin
test_data/chr20_region.gfa.truth-cache/
test_data/trich2/
test_data/hprc/*.bed.gz
test_data/hprc/*.bed.gz.tbi
test_data/hprc/*.seglens.bin
test_data/hprc/*.assembly_map.json
test_data/hprc/*.paf.gz
test_data/hprc/*.paf.gz.tbi
# committed (580KB) so the chr20 pangenome smoke test runs without remote data
!test_data/hprc/hprc-v1.1-mc-grch38-chr20.synteny.paf.gz
!test_data/hprc/hprc-v1.1-mc-grch38-chr20.synteny.paf.gz.tbi
test_data/volvox/*.og
.claude

# component_tests install npm packages without a committed lockfile (see
# .github/workflows/push.yml); yarn.lock here is a local-only generated artifact
component_tests/*/yarn.lock
component_tests/*/pnpm-lock.yaml
**/.astro

# generated by examples-site/scripts/gen-panukb-manifest.mjs; hosted at
# s3://jbrowse.org/demos/panukbb/ instead of tracked in git
products/jbrowse-react-linear-genome-view/examples-site/panukbPhenotypes.json

# profiler/tracer output (scripts/profile-app.ts, profile-spec.ts, trace-tasks.ts)
perf-out/