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Code Issues Packages Projects Releases Wiki Activity

CXG performance improvements (#1371)

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* initial kv cache

* add per-key locks

* comments

* memoize schema

* add missing initialization

* fix sever timing

* fetch only what is requested

* fix tests to not require strict ordering of columns

* clean up annotation request

* remove debugging print
This commit is contained in:
Bruce Martin
2020-04-09 10:19:26 -07:00
committed by GitHub
parent e2a12ba9bb
commit 0398249a20
3 changed files with 171 additions and 38 deletions
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server/test/test_api.py
+4 -4
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@@ -84,7 +84,7 @@ class EndPoints(object):
self.assertIsNone(df["row_idx"])
self.assertEqual(len(df["columns"]), df["n_cols"])
obs_index_col_name = self.schema["schema"]["annotations"]["obs"]["index"]
self.assertListEqual(
self.assertCountEqual(
df["col_idx"],
[obs_index_col_name, "n_genes", "percent_mito", "n_counts", "louvain"]
+ (["cluster-test"] if self.ANNOTATIONS_ENABLED else []),
@@ -104,7 +104,7 @@ class EndPoints(object):
self.assertIsNotNone(df["columns"])
self.assertIsNone(df["row_idx"])
self.assertEqual(len(df["columns"]), df["n_cols"])
self.assertListEqual(df["col_idx"], ["n_genes", "percent_mito"])
self.assertCountEqual(df["col_idx"], ["n_genes", "percent_mito"])
def test_get_annotations_obs_error(self):
endpoint = "annotations/obs"
@@ -157,7 +157,7 @@ class EndPoints(object):
self.assertIsNone(df["row_idx"])
self.assertEqual(len(df["columns"]), df["n_cols"])
var_index_col_name = self.schema["schema"]["annotations"]["var"]["index"]
self.assertListEqual(df["col_idx"], [var_index_col_name, "n_cells"])
self.assertCountEqual(df["col_idx"], [var_index_col_name, "n_cells"])
def test_get_annotations_var_keys_fbs(self):
endpoint = "annotations/var"
@@ -173,7 +173,7 @@ class EndPoints(object):
self.assertIsNotNone(df["columns"])
self.assertIsNone(df["row_idx"])
self.assertEqual(len(df["columns"]), df["n_cols"])
self.assertListEqual(df["col_idx"], ["n_cells"])
self.assertCountEqual(df["col_idx"], ["n_cells"])
def test_get_annotations_var_error(self):
endpoint = "annotations/var"