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Code Issues Packages Projects Releases Wiki Activity

diffexp performance & UX improvements (#431)

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* new diffexp REST API spec

* new diffexp REST API; faster diffexp and dataframe slicing

* first draft of fast diffexp

* convert variance calculation to two-pass method

* lint

* update front-end use of API

* fix typo in spec

* disable content compression

* catch index filter format errors

* clean up of dead code

* resolve PR review comments
This commit is contained in:
Bruce Martin
2018-11-14 12:51:24 -08:00
committed by GitHub
parent bc0cecbd1c
commit 00a68276a2
11 changed files with 237 additions and 227 deletions
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1
server/test/test_api.py
View File

@@ -198,6 +198,7 @@ class EndPoints(unittest.TestCase):
url = f"{URL_BASE}{endpoint}"
params = {
"mode": "topN",
"count": 10,
"set1": {
"filter": {
"obs": {

8
server/test/test_scanpy_engine.py
View File

@@ -85,7 +85,7 @@ class UtilTest(unittest.TestCase):
}
}
}
data = self.data.filter_dataframe(filter_["filter"], include_uns=False)
data = self.data.filter_dataframe(filter_["filter"])
self.assertEqual(data.shape[1], 1)
def test_filter_complex(self):
@@ -184,7 +184,7 @@ class UtilTest(unittest.TestCase):
layout = self.data.layout(filter_["filter"])
self.assertEqual(len(layout["coordinates"]), 497)
def test_diffexp(self):
def test_diffexp_topN(self):
f1 = {
"filter": {
"obs": {
@@ -199,11 +199,11 @@ class UtilTest(unittest.TestCase):
}
}
}
result = self.data.diffexp(f1["filter"], f2["filter"])
result = self.data.diffexp_topN(f1["filter"], f2["filter"])
self.assertEqual(len(result), 10)
var_idx = [i[0] for i in result]
self.assertEqual(var_idx, sorted(var_idx))
result = self.data.diffexp(f1["filter"], f2["filter"], 20)
result = self.data.diffexp_topN(f1["filter"], f2["filter"], 20)
self.assertEqual(len(result), 20)
def test_data_frame(self):