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Code Issues Packages Projects Releases Wiki Activity

annotations cli updates (#1190)

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* Switch logic from `--annotations` to `--disable-annotations

* Rename `--annotations-file` --> `--annotations-input-file` and remove `experimental`

* update docs

* update makefile

* update tests

* Disable annotations on standard client smoke test

* Update docs/posts/annotations.md

Co-Authored-By: Matt Weiden <538456+mweiden@users.noreply.github.com>

* Update docs/posts/annotations.md

* Renaming

* Docs

* Update tests

* Pesky typo -_-

Co-authored-by: Matt Weiden <538456+mweiden@users.noreply.github.com>
This commit is contained in:
Sidney Bell
2020-03-11 11:57:52 -07:00
committed by GitHub
co-authored by Matt Weiden
parent 8beeb57c96
commit 9089fc98f2
7 changed files with 50 additions and 55 deletions
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server/test/test_api.py
+7 -5
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@@ -17,7 +17,7 @@ BAD_FILTER = {"filter": {"obs": {"annotation_value": [{"name": "xyz"}]}}}
class EndPoints(object):
ANNOTATIONS_ENABLED = False
ANNOTATIONS_ENABLED = True
def setUp(self):
self.session = requests.Session()
@@ -324,6 +324,7 @@ class EndPointsAnndata(unittest.TestCase, EndPoints):
LOCAL_URL = f"http://127.0.0.1:{PORT}/"
VERSION = "v0.2"
URL_BASE = f"{LOCAL_URL}api/{VERSION}/"
ANNOTATIONS_ENABLED = False
@classmethod
def setUpClass(cls):
@@ -334,6 +335,7 @@ class EndPointsAnndata(unittest.TestCase, EndPoints):
"--no-upgrade-check",
"launch",
"../example-dataset/pbmc3k.h5ad",
"--disable-annotations",
"--verbose",
"--port",
str(cls.PORT),
@@ -356,6 +358,7 @@ class EndPointsCxg(unittest.TestCase, EndPoints):
LOCAL_URL = f"http://127.0.0.1:{PORT}/"
VERSION = "v0.2"
URL_BASE = f"{LOCAL_URL}api/{VERSION}/"
ANNOTATIONS_ENABLED = False
@classmethod
def setUpClass(cls):
@@ -366,6 +369,7 @@ class EndPointsCxg(unittest.TestCase, EndPoints):
"--no-upgrade-check",
"launch",
"test/test_datasets/pbmc3k.cxg",
"--disable-annotations",
"--verbose",
"--port",
str(cls.PORT),
@@ -398,8 +402,7 @@ class EndPointsAnndataAnnotations(unittest.TestCase, EndPointsAnnotations):
"cellxgene",
"--no-upgrade-check",
"launch",
"--experimental-annotations",
"--experimental-annotations-file",
"--annotations-file",
cls.annotations.output_file,
"--verbose",
"--port",
@@ -433,8 +436,7 @@ class EndPointsCxgAnnotations(unittest.TestCase, EndPointsAnnotations):
"cellxgene",
"--no-upgrade-check",
"launch",
"--experimental-annotations",
"--experimental-annotations-file",
"--annotations-file",
cls.annotations.output_file,
"--verbose",
"--port",