.gitignore
AGENTS.md
README.md
SURVEY.md
cluex.yaml
iam-policy.json
iam-policy.json.original
pyproject.toml
ursa_activate
.github/workflows/ci.yml
bin/daylily-export-fsx-to-s3
bin/daylily-export-fsx-to-s3-from-local
bin/daylily-stage-samples-from-local-to-headnode
bin/daylily-workset-api
bin/daylily-workset-metrics
bin/daylily-workset-report
config/daylily-workset-monitor.yaml
config/dayu_env.yaml
config/ecosystem-versions.json
config/ursa-config.example.yaml
config/ursa_env.yaml
config/workset-monitor-config.template.yaml
config/workset-monitor-config.yaml
daylib/__init__.py
daylib/billing.py
daylib/biospecimen.py
daylib/biospecimen_api.py
daylib/cluster_service.py
daylib/config.py
daylib/exceptions.py
daylib/export_fsx.py
daylib/file_api.py
daylib/file_metadata.py
daylib/file_registry.py
daylib/file_upload.py
daylib/manifest_registry.py
daylib/pipeline_status.py
daylib/purge_customer.py
daylib/rate_limiting.py
daylib/s3_bucket_validator.py
daylib/s3_utils.py
daylib/security.py
daylib/stage_samples.py
daylib/ursa_config.py
daylib/workset_api.py
daylib/workset_api_cli.py
daylib/workset_concurrent_processor.py
daylib/workset_customer.py
daylib/workset_diagnostics.py
daylib/workset_integration.py
daylib/workset_metrics.py
daylib/workset_monitor.py
daylib/workset_monitor_cli.py
daylib/workset_notifications.py
daylib/workset_report.py
daylib/workset_scheduler.py
daylib/workset_state_db.py
daylib/workset_validation.py
daylib/workset_worker.py
daylib/cli/__init__.py
daylib/cli/aws.py
daylib/cli/env.py
daylib/cli/monitor.py
daylib/cli/server.py
daylib/cli/test.py
daylib/routes/__init__.py
daylib/routes/billing.py
daylib/routes/clusters.py
daylib/routes/customer_worksets.py
daylib/routes/customers.py
daylib/routes/dashboard.py
daylib/routes/dependencies.py
daylib/routes/files.py
daylib/routes/manifests.py
daylib/routes/monitoring.py
daylib/routes/portal.py
daylib/routes/s3.py
daylib/routes/worksets.py
daylib/search/__init__.py
daylib/search/global_search.py
daylib/tapdb_graph/__init__.py
daylib/tapdb_graph/backend.py
daylily_ursa.egg-info/PKG-INFO
daylily_ursa.egg-info/SOURCES.txt
daylily_ursa.egg-info/dependency_links.txt
daylily_ursa.egg-info/entry_points.txt
daylily_ursa.egg-info/requires.txt
daylily_ursa.egg-info/top_level.txt
docs/AUTHENTICATION_SETUP.md
docs/BILLING_INTEGRATION.md
docs/CUSTOMER_PORTAL.md
docs/ERROR_DIAGNOSTICS.md
docs/GOOGLE_OAUTH_DEFAULT.md
docs/IAM_SETUP_GUIDE.md
docs/INTEGRATION_GUIDE.md
docs/MULTI_REGION.md
docs/PRODUCTION_FINAL_PHASES_AND_TASKS_TO_COMPLETE.md
docs/PRODUCTION_READINESS_REVIEW_2026-01-24.md
docs/QUICKSTART_WORKSET_MONITOR.md
docs/QUICK_REFERENCE.md
docs/WORKSET_STATE_DIAGRAM.md
docs/ursa_refactor_pr_plan.md
docs/ursa_tapdb_refactor_design.md
examples/run_api_with_auth.py
examples/run_api_without_auth.py
scripts/bootstrap_biospecimen_templates.py
scripts/bootstrap_file_registry_templates.py
scripts/check_tapdb_state.py
scripts/drop_daylily_tables.py
scripts/setup_cognito_google_default.sh
static/css/main.css
static/js/api.js
static/js/charts.js
static/js/file-registry.js
static/js/files.js
static/js/global-search.js
static/js/main.js
static/js/manifest-generator.js
static/js/table-utils.js
static/js/worksets.js
static/js/yaml-generator.js
templates/account.html
templates/base.html
templates/clusters.html
templates/dashboard.html
templates/docs.html
templates/feature_requests.html
templates/info.html
templates/manifest_generator.html
templates/support.html
templates/usage.html
templates/admin/users.html
templates/auth/change_password.html
templates/auth/forgot_password.html
templates/auth/login.html
templates/auth/register.html
templates/auth/reset_password.html
templates/biospecimen/subjects.html
templates/files/browse.html
templates/files/buckets.html
templates/files/detail.html
templates/files/edit_file.html
templates/files/fileset_detail.html
templates/files/filesets.html
templates/files/index.html
templates/files/register.html
templates/files/upload.html
templates/legal/privacy.html
templates/legal/terms.html
templates/monitor/dashboard.html
templates/search/results.html
templates/worksets/archived.html
templates/worksets/detail.html
templates/worksets/list.html
templates/worksets/new.html
templates/worksets/results_browse.html
tests/__init__.py
tests/conftest.py
tests/test_billing.py
tests/test_biospecimen.py
tests/test_cli_aws.py
tests/test_cli_cognito.py
tests/test_console_scripts.py
tests/test_file_api.py
tests/test_file_metadata.py
tests/test_file_registry.py
tests/test_integration.py
tests/test_integration_file_api.py
tests/test_manifest_api.py
tests/test_manifest_registry.py
tests/test_monitor_dashboard.py
tests/test_no_dynamo_indicators.py
tests/test_optional_auth.py
tests/test_portal_account_security.py
tests/test_portal_authz_matrix.py
tests/test_region_config.py
tests/test_route_endpoint_coverage.py
tests/test_s3_bucket_validator.py
tests/test_static_css.py
tests/test_tapdb_backend.py
tests/test_tapdb_sequence_bootstrap_live.py
tests/test_workset_concurrent_processor.py
tests/test_workset_customer.py
tests/test_workset_diagnostics.py
tests/test_workset_integration.py
tests/test_workset_notifications.py
tests/test_workset_portal.py
tests/test_workset_state_db.py
tests/test_workset_validation.py