Fix 3d error (CAVEconnectome#431)

fcollman · web-flow · commit 1d515cedccbf · 2023-01-03T14:25:50.000-08:00
* fail_to_zero=True for get_roots spatial sv lookup

* removing hardcoding of credentials location

* adding DS_Store to gitignore
diff --git a/.gitignore b/.gitignore
@@ -118,4 +118,5 @@ venv.bak/
 .devcontainer/
 *.ipynb
 *.rdb
-/protobuf*
+/protobuf*
+.DS_Store
diff --git a/pychunkedgraph/graph/utils/id_helpers.py b/pychunkedgraph/graph/utils/id_helpers.py
@@ -161,6 +161,7 @@ def get_atomic_ids_from_coords(
         local_sv_ids,
         time_stamp=parent_ts,
         stop_layer=parent_id_layer,
+        fail_to_zero=True
     )
 
     local_parent_seg = fastremap.remap(
diff --git a/pychunkedgraph/logging/flask_log_db.py b/pychunkedgraph/logging/flask_log_db.py
@@ -5,8 +5,8 @@
 HOME = os.path.expanduser('~')
 
 # Setting environment wide credential path
-os.environ["GOOGLE_APPLICATION_CREDENTIALS"] = \
-           HOME + "/.cloudvolume/secrets/google-secret.json"
+#os.environ["GOOGLE_APPLICATION_CREDENTIALS"] = \
+#           HOME + "/.cloudvolume/secrets/google-secret.json"
 
 
 class FlaskLogDatabase(object):

Original file line number	Diff line number	Diff line change
`@@ -161,6 +161,7 @@ def get_atomic_ids_from_coords(`
`161`	`161`	`local_sv_ids,`
`162`	`162`	`time_stamp=parent_ts,`
`163`	`163`	`stop_layer=parent_id_layer,`
	`164`	`+ fail_to_zero=True`
`164`	`165`	`)`
`165`	`166`
`166`	`167`	`local_parent_seg = fastremap.remap(`