Update setup.py

miso/cli/__main__.py

@@ -4,12 +4,12 @@
 
 
 @click.command()
-@click.option('--model', '-m', type=click.Path(exists=True), required=True, help='Path to the model information.')
+@click.option('--model', '-m', type=click.Path(exists=True), required=True, help='Path to the model information XML.')
 @click.option('--input', '-i', type=click.Path(exists=True), required=True, help='Path to the directory containing images.')
-@click.option('--output', '-o', type=click.Path(), required=True, help='Path where the output CSV will be saved.')
+@click.option('--output', '-o', type=click.Path(), required=True, help='Path of the output CSV to be saved.')
 @click.option('--batch_size', '-b', type=int, default=32, show_default=True, help='Batch size for processing images.')
 @click.option('--in_samples/--no-in_samples', '-f', default=False, show_default=True, help='Set this flag if images are stored in subfolders, using the subfolder names as sample labels.')
-@click.option('--sample', '-s', type=str, default='unknown', show_default=True, help='Default sample name if not using subdirectories.')
+@click.option('--sample', '-s', type=str, default='unknown', show_default=True, help='Default sample name if not using subfolders.')
 @click.option('--unsure_threshold', 'u', type=float, default=0.0, show_default=True, help='Threshold below which predictions are considered unsure.')
 def classify_folder(model, folder, output, batch_size, in_samples, sample, unsure_threshold):
     """

setup.py

@@ -1,12 +1,12 @@
-from setuptools import setup
+from setuptools import setup, find_packages
 import pathlib
 
 here = pathlib.Path(__file__).parent.resolve()
 long_description = (here / 'README.md').read_text(encoding='utf-8')
 
 setup(
     name='miso',
-    version='3.1.4',
+    version='3.1.5',
     description='Python scripts for training CNNs for particle classification',
     long_description=long_description,
     long_description_content_type='text/markdown',
@@ -18,8 +18,7 @@
     ],
     keywords='microfossil, cnn',
     python_requires='>=3.9,<=3.11',
-    packages=['miso', 'miso.data', 'miso.deploy', 'miso.layers', 'miso.models', 'miso.stats', 'miso.training',
-              'miso.utils'],
+    packages=find_packages(where='miso'),
     install_requires=['tensorflow==2.10.1',
                       'image-classifiers==1.0.0',
                       'lxml==5.1.0',