re-organize imports

Package rename from `chlamytracker` to `swimtracker` caused imports to no longer be alphabetized

notebooks/1_compute-summary-motility-metrics.ipynb

@@ -42,9 +42,9 @@
     "from pathlib import Path\n",
     "\n",
     "import pandas as pd\n",
+    "from natsort import natsorted\n",
     "from swimtracker.timelapse import Timelapse\n",
     "from swimtracker.tracking_metrics import TrajectoryCSVParser\n",
-    "from natsort import natsorted\n",
     "from tqdm.notebook import tqdm"
    ]
   },
@@ -715,7 +715,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "tracking",
    "language": "python",
    "name": "python3"
   },

notebooks/5_pca-of-motility-features.ipynb

@@ -30,8 +30,8 @@
     "import numpy as np\n",
     "import pandas as pd\n",
     "import seaborn as sns\n",
-    "from swimtracker.stats_testing import joint_grid_with_stats\n",
-    "from sklearn.decomposition import PCA"
+    "from sklearn.decomposition import PCA\n",
+    "from swimtracker.stats_testing import joint_grid_with_stats"
    ]
   },
   {
@@ -647,7 +647,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "tracking",
    "language": "python",
    "name": "python3"
   },

src/chlamytracker/scripts/generate_bioimage_archive_file_lists.py

@@ -3,8 +3,8 @@
 
 import click
 import pandas as pd
-from swimtracker import cli_options
 from natsort import natsorted
+from swimtracker import cli_options
 
 DATA_DIRECTORY = Path(__file__).parents[3] / "data"
 SAMPLE_PREP_PARAMETERS_JSON = DATA_DIRECTORY / "experimental_parameters.json"

src/chlamytracker/scripts/make_movies_of_pools.py

@@ -7,11 +7,11 @@
 import numpy as np
 import pandas as pd
 import skimage as ski
+from napari_animation import Animation
+from natsort import natsorted
 from swimtracker import cli_options
 from swimtracker.tracking_metrics import TrajectoryCSVParser
 from swimtracker.utils import configure_logger, crop_movie_to_content
-from napari_animation import Animation
-from natsort import natsorted
 from tqdm import tqdm
 
 logger = logging.getLogger(__name__)

src/chlamytracker/scripts/make_movies_of_wells.py

@@ -4,11 +4,11 @@
 import napari
 import nd2
 import numpy as np
+from napari_animation import Animation
+from natsort import natsorted
 from swimtracker import cli_options
 from swimtracker.tracking_metrics import TrajectoryCSVParser
 from swimtracker.utils import configure_logger, crop_movie_to_content
-from napari_animation import Animation
-from natsort import natsorted
 from tqdm import tqdm
 
 logger = logging.getLogger(__name__)

src/chlamytracker/scripts/track_cells.py

@@ -3,11 +3,11 @@
 import click
 import numpy as np
 import skimage as ski
+from natsort import natsorted
 from swimtracker import cli_options
 from swimtracker.pool_finder import PoolFinder
 from swimtracker.tracking import Tracker
 from swimtracker.well_processor import WellSegmenter
-from natsort import natsorted
 from tqdm import tqdm
 
 logger = logging.getLogger(__name__)

src/chlamytracker/stack_processing.py

@@ -4,7 +4,6 @@
 import dask.array as da
 import numpy as np
 import skimage as ski
-
 from swimtracker.utils import timeit