NSCCN/grz-cli：用于管理和操作Graviti数据集的命令行工具

ci(repo): scope per-package tox tests to single workspace member (#578)

Previously the per-package test matrix installed the full workspace via uv sync --all-extras --all-groups, which masked missing-dep regressions in individual package pyprojects (a wheel of grz-cli built from current source would fail to import because grz-common referenced grz_db without declaring it). Drive uv sync through a single workspace member via tox-uv’s uv_sync_flags and a GRZ_TOX_PACKAGE env var so each package’s tests run against only its declared deps. The transitive-import regression that this guard surfaced is fixed in the same PR, alongside several follow-up cleanups.

fix(grz-common,grz-db,grzctl): move populate logic into SubmissionDb

feat(grz-db,grz-common): clean up SubmissionDb.populate API surface

refactor(grz-db,grz-common,grzctl): extract shared metadata + redaction helpers

fix(grzctl): correct stale grz-cli hint in submission-not-found errors

fix(grz-pydantic-models,grz-db): align inconsistent version pins

GRZ Tools Monorepo

This monorepo hosts the following packages:

grz-cli - A command-line tool for validating, encrypting and uploading submissions to a GRZ.

grz-pydantic-models - Pydantic models for schemas related to the genomDE Model Project.

grzctl - GRZ internal tooling.

grz-common - Common code shared between packages in grz-tools.

grz-db - Libraries, SQL models and alembic migrations for the GRZ internal submission DB.

grz-cli - A command-line tool for validating, encrypting and uploading submissions to a GRZ.
grz-pydantic-models - Pydantic models for schemas related to the genomDE Model Project.
grzctl - GRZ internal tooling.
grz-common - Common code shared between packages in grz-tools.
grz-db - Libraries, SQL models and alembic migrations for the GRZ internal submission DB.

grz-cli

The grz-cli package is the primary CLI for submissions to the GRZs. It provides functionality for:

Validating submissions
Encrypting files using crypt4gh
Uploading files to a GRZ

For detailed installation and usage instructions, please refer to the grz-cli README.

Development setup

See CONTRIBUTING.md for instructions on setting up a development environment.

Legacy Information

Previous grz-cli repository content is still available in the archive/pre-monorepo branch.