# pylint: disable=W0621,C0114,C0116,W0212,W0613
import pathlib
from gain.genomic_resources.repository_factory import (
build_genomic_resource_repository,
)
from gain.testing.foobar_import import foobar_genes, foobar_genome
from gpf.genotype_storage.genotype_storage import GenotypeStorage
from gpf.gpf_instance.gpf_instance import GPFInstance
from gpf.testing.setup_helpers import setup_gpf_instance
[docs]
def foobar_gpf(
root_path: pathlib.Path,
storage: GenotypeStorage | None = None) -> GPFInstance:
foobar_genome(root_path)
foobar_genes(root_path)
local_repo = build_genomic_resource_repository({
"id": "foobar_local",
"type": "directory",
"directory": str(root_path),
})
gpf_instance = setup_gpf_instance(
root_path / "gpf_instance",
reference_genome_id="foobar_genome",
gene_models_id="foobar_genes",
grr=local_repo)
if storage:
gpf_instance\
.genotype_storages\
.register_default_storage(storage)
return gpf_instance