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Add a function to check the configuration for errors. (#1919)

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This can be used as a sanity check before a deployment:

  chanzuckerberg/single-cell#63
This commit is contained in:
bmccandless
2020-10-08 08:44:09 -07:00
committed by GitHub
parent 6c1756f852
commit b5ec43c4b1
11 changed files with 136 additions and 41 deletions
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server/test/__init__.py
+6 -2
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@@ -34,7 +34,7 @@ def data_with_tmp_tiledb_annotations(ext: MatrixDataType):
data_locator = DataLocator(fname)
config = AppConfig()
config.update_server_config(
multi_dataset__dataroot=data_locator.path, authentication__type="test",
app__flask_secret_key="secret", multi_dataset__dataroot=data_locator.path, authentication__type="test",
)
config.update_default_dataset_config(
embeddings__names=["umap"],
@@ -64,7 +64,10 @@ def data_with_tmp_annotations(ext: MatrixDataType, annotations_fixture=False):
data_locator = DataLocator(fname)
config = AppConfig()
config.update_server_config(
single_dataset__obs_names=None, single_dataset__var_names=None, single_dataset__datapath=data_locator.path
app__flask_secret_key="secret",
single_dataset__obs_names=None,
single_dataset__var_names=None,
single_dataset__datapath=data_locator.path,
)
config.update_default_dataset_config(
embeddings__names=["umap"], presentation__max_categories=100, diffexp__lfc_cutoff=0.01,
@@ -97,6 +100,7 @@ def skip_if(condition, reason: str):
def app_config(data_locator, backed=False, extra_server_config={}, extra_dataset_config={}):
config = AppConfig()
config.update_server_config(
app__flask_secret_key="secret",
single_dataset__obs_names=None,
single_dataset__var_names=None,
adaptor__anndata_adaptor__backed=backed,