Merge pull request #144 from Janelia-Trackathon-2023/pre-commit-ci-up…

…date-config

ci(pre-commit.ci): autoupdate

.pre-commit-config.yaml

@@ -5,23 +5,23 @@ ci:
 
 repos:
   - repo: https://github.com/crate-ci/typos
-    rev: v1.16.26
+    rev: v1.18.1
     hooks:
       - id: typos
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.1.9
+    rev: v0.2.0
     hooks:
       - id: ruff
         args: [--fix]
 
   - repo: https://github.com/psf/black
-    rev: 23.12.1
+    rev: 24.1.1
     hooks:
       - id: black
 
   - repo: https://github.com/abravalheri/validate-pyproject
-    rev: v0.15
+    rev: v0.16
     hooks:
       - id: validate-pyproject
 

src/traccuracy/__init__.py

@@ -1,4 +1,5 @@
 """package description."""
+
 from importlib.metadata import PackageNotFoundError, version
 
 try:

src/traccuracy/_tracking_graph.py

@@ -195,13 +195,13 @@ def __init__(
                 self.nodes_by_frame[frame].add(node)
             # store node id in nodes_by_flag mapping
             for node_flag in NodeFlag:
-                if node_flag in attrs and attrs[node_flag]:
+                if attrs.get(node_flag):
                     self.nodes_by_flag[node_flag].add(node)
 
         # store edge id in edges_by_flag
         for edge, attrs in self.graph.edges.items():
             for edge_flag in EdgeFlag:
-                if edge_flag in attrs and attrs[edge_flag]:
+                if attrs.get(edge_flag):
                     self.edges_by_flag[edge_flag].add(edge)
 
         # Store first and last frames for reference

src/traccuracy/loaders/__init__.py

@@ -5,6 +5,7 @@
 Each loading function must return one TrackingGraph object which has a
 track graph and optionally contains a corresponding segmentation.
 """
+
 from ._ctc import _check_ctc, _get_node_attributes, _load_tiffs, load_ctc_data
 
 __all__ = ["load_ctc_data", "_check_ctc", "_load_tiffs", "_get_node_attributes"]

src/traccuracy/matchers/__init__.py

@@ -25,6 +25,7 @@
 While we specify ground truth and prediction, it is possible to
 write a matching function that matches two arbitrary tracking solutions.
 """
+
 from ._base import Matched
 from ._compute_overlap import get_labels_with_overlap
 from ._ctc import CTCMatcher

src/traccuracy/matchers/_compute_overlap.py

@@ -5,6 +5,7 @@
 Licensed under The MIT License [see LICENSE for details]
 Copyright (c) 2015 Microsoft
 """
+
 from typing import Tuple
 
 import numpy as np

src/traccuracy/metrics/_divisions.py

@@ -32,6 +32,7 @@
 of the early division, by advancing along the graph to find nodes in the same frame
 as the late division daughters.
 """
+
 from __future__ import annotations
 
 from typing import TYPE_CHECKING

src/traccuracy/metrics/_track_overlap.py

@@ -10,6 +10,7 @@
 
 - TP is defined analogously, with T^g_j and T^p_j being swapped in the definition.
 """
+
 from __future__ import annotations
 
 from itertools import groupby, product