Skip to content

Commit

Permalink
Install napari with pip via plugin
Browse files Browse the repository at this point in the history
  • Loading branch information
cmalinmayor committed Aug 13, 2024
1 parent d49d1d0 commit 0e73bc2
Showing 1 changed file with 5 additions and 6 deletions.
11 changes: 5 additions & 6 deletions setup.sh
Original file line number Diff line number Diff line change
Expand Up @@ -16,17 +16,14 @@ conda activate 09-tracking

# Install dependencies
conda install -y -c conda-forge -c gurobi -c funkelab ilpy
conda install -y -c conda-forge napari pyqt

pip install numpy
pip install motile
pip install traccuracy
pip install plotly
pip install "motile>=0.3"
pip install "traccuracy>=0.1.1"
pip install git+https://github.com/funkelab/motile_napari_plugin.git@track-viewer#egg=motile_plugin
pip install matplotlib
pip install ipywidgets
pip install nbformat
pip install pandas
pip install git+https://github.com/funkelab/motile_napari_plugin.git@track-viewer#egg=motile_plugin

# Make environment discoverable by Jupyter
pip install ipykernel
Expand All @@ -36,6 +33,8 @@ conda deactivate
# Download data from s3
wget https://dl-at-mbl-data.s3.us-east-2.amazonaws.com/2024/09_tracking/data.zip
unzip data.zip
rm data.zip

# Alternatively, use the aws cli
# mkdir data
# aws s3 cp s3://dl-at-mbl-data/2024/09_tracking/ data/ --recursive --no-sign-request

0 comments on commit 0e73bc2

Please sign in to comment.