diff --git a/PyNutil/main.py b/PyNutil/main.py index c7773fe4b2cc5adb6f0314905c52a51f11dba142..dd229bfefeb493c9df1ae6c05fb3982bedb61952 100644 --- a/PyNutil/main.py +++ b/PyNutil/main.py @@ -1,4 +1,3 @@ -from .metadata import metadata_loader from .read_and_write import read_atlas_volume, write_points_to_meshview from .coordinate_extraction import folder_to_atlas_space from .counting_and_load import label_points, pixel_count_per_region diff --git a/README.md b/README.md index 141048a2dc13e95972c0c12164a4c0843713c85c..04461023f81b179f7028e1382240aa125cf00d63 100644 --- a/README.md +++ b/README.md @@ -5,7 +5,10 @@ PyNutil is a Python library for brain-wide quantification and spatial analysis o For more information about the QUINT workflow: https://quint-workflow.readthedocs.io/en/latest/ - +# Installation +``` +pip install PyNutil +``` # Usage As input, PyNutil requires: 1. An alignment JSON created with the QuickNII or VisuAlign software diff --git a/setup.py b/setup.py index bdc1e566e2b90af30151f9cbc0b037a711d8cd79..7ccfaa8d8132250adafb29a3fec3dc71fdbd74ba 100644 --- a/setup.py +++ b/setup.py @@ -5,7 +5,7 @@ long_description = (this_directory / "README.md").read_text() setup( name="PyNutil", - version='0.1.4', + version='0.1.1', packages=find_packages(), license='MIT', description='a package to translate data between common coordinate templates', @@ -13,10 +13,12 @@ setup( long_description_content_type='text/markdown', install_requires=[ 'numpy', - 'nibabel', - 'scipy', - 'networkx', + 'brainglobe_atlasapi', 'pandas', - 'requests' + 'requests', + 'pynrrd', + 'xmltodict', + 'opencv-python', + 'scikit-image' ] ) \ No newline at end of file