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Add provenance header to labels CSV file (#1041)

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* add last mod time lookup to data locator

* store data locator in Driver

* save metadata header in labels csv

* lint

* fix tests

* change datetime format to second precision
This commit is contained in:
Bruce Martin
2019-11-14 12:33:48 -08:00
committed by GitHub
parent 89d748b007
commit 5ea9ac8a9e
6 changed files with 40 additions and 18 deletions
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server/test/test_scanpy_engine_data_load.py
+2 -2
View File
@@ -37,7 +37,7 @@ class DataLoadEngineTest(unittest.TestCase):
self.data._create_schema()
def test_delayed_load_data(self):
self.data.update(data=self.data_file)
self.data.update(data_locator=self.data_file)
self.data._create_schema()
self.assertEqual(self.data.cell_count, 2638)
self.assertEqual(self.data.gene_count, 1838)
@@ -45,7 +45,7 @@ class DataLoadEngineTest(unittest.TestCase):
self.assertTrue(self.data.data.X[0, 0] - -0.171_469_51 < epsilon)
def test_diffexp_topN(self):
self.data.update(data=self.data_file)
self.data.update(data_locator=self.data_file)
f1 = {"filter": {"obs": {"index": [[0, 500]]}}}
f2 = {"filter": {"obs": {"index": [[500, 1000]]}}}
result = json.loads(self.data.diffexp_topN(f1["filter"], f2["filter"]))
server/test/test_writable_annotation.py
+2 -2
View File
@@ -60,7 +60,7 @@ class WritableAnnotationTest(unittest.TestCase):
res = self.data.annotation_put_fbs("obs", fbs)
self.assertEqual(res, json.dumps({"status": "OK"}))
self.assertTrue(path.exists(self.label_file))
df = pd.read_csv(self.label_file, index_col=0)
df = pd.read_csv(self.label_file, index_col=0, header=0, comment='#')
self.assertEqual(df.shape, (n_rows, 2))
self.assertEqual(set(df.columns), set(['cat_A', 'cat_B']))
self.assertTrue(self.data.original_obs_index.equals(df.index))
@@ -75,7 +75,7 @@ class WritableAnnotationTest(unittest.TestCase):
res = self.data.annotation_put_fbs("obs", fbs)
self.assertEqual(res, json.dumps({"status": "OK"}))
self.assertTrue(path.exists(self.label_file))
df = pd.read_csv(self.label_file, index_col=0)
df = pd.read_csv(self.label_file, index_col=0, header=0, comment='#')
self.assertEqual(set(df.columns), set(['cat_A', 'cat_C']))
self.assertTrue(np.all(df['cat_A'] == ['label_A1' for l in range(0, n_rows)]))
self.assertTrue(np.all(df['cat_C'] == ['label_C' for l in range(0, n_rows)]))