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Add schema subcommand (#1939)

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Add the `cellxgene schema apply` and `cellxgene schema validate` subcommands.

The first takes an h5ad file and a yaml with config information and produces a new h5ad that follows the cellxgene data integration schema.

The second takes an h5ad and checks if it follows the schema version written into its metadata.

Both are currently marked as "experimental" as the primary intended users are still at CZI.
This commit is contained in:
Marcus Kinsella
2020-11-02 08:26:37 -08:00
committed by GitHub
parent b9e132a00c
commit 78176f9711
20 changed files with 2224 additions and 0 deletions
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server/cli/cli.py
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@@ -4,6 +4,7 @@ from .convert_to_cxg import convert_to_cxg
from .launch import launch
from .prepare import prepare
from .upgrade import log_upgrade_check
from .schema import schema_cli
from .. import __version__
@@ -31,3 +32,4 @@ def cli(upgrade_check):
cli.add_command(launch)
cli.add_command(prepare)
cli.add_command(convert_to_cxg)
cli.add_command(schema_cli)