diff --git a/.github/workflows/test-python-scripts.yml b/.github/workflows/test-python-scripts.yml index e6c110c5..4feffa38 100644 --- a/.github/workflows/test-python-scripts.yml +++ b/.github/workflows/test-python-scripts.yml @@ -29,7 +29,7 @@ jobs: channel-priority: strict miniforge-version: latest - name: install common conda dependencies - run: conda install -c conda-forge -c euro-bioimaging python=3.10 napari=0.4.17 pytest notebook matplotlib jupytext "scikit-image>=0.20" openijtiff -y + run: conda install -c conda-forge -c euro-bioimaging python=3.10 napari=0.4.17 pytest notebook matplotlib jupytext "scikit-image>=0.20" openijtiff napari-plot-profile -y - name: linux test if: matrix.os == 'ubuntu-latest' shell: bash -l {0} diff --git a/_includes/pixels/pixels_act1_skimage_napari.py b/_includes/pixels/pixels_act1_skimage_napari.py index c58d12b0..8083d409 100644 --- a/_includes/pixels/pixels_act1_skimage_napari.py +++ b/_includes/pixels/pixels_act1_skimage_napari.py @@ -1,9 +1,5 @@ # %% [markdown] # ## Inspect a 2D image -# To follow along for the plot profile you require a napari plugin. \ -# Install napari-plot-profile in your course activated conda environment.\ -# `conda activate skimage-napari-tutorial` \ -# `pip install napari-plot-profile` # %% # Load the image diff --git a/_includes/tool_installation/install_skimage_napari_conda.md b/_includes/tool_installation/install_skimage_napari_conda.md index a0c5a2e9..557dddb6 100644 --- a/_includes/tool_installation/install_skimage_napari_conda.md +++ b/_includes/tool_installation/install_skimage_napari_conda.md @@ -3,7 +3,7 @@ 1. install [miniconda](https://docs.conda.io/en/latest/miniconda.html) 1. open a terminal window * Windows: *Anaconda Prompt (Miniconda3)*, e.g. type `Anaconda` in the search bar -1. write `conda create -n skimage-napari-tutorial -c conda-forge -c euro-bioimaging python=3.10 napari=0.4.17 notebook matplotlib jupytext "scikit-image>=0.20" openijtiff` and press enter +1. write `conda create -n skimage-napari-tutorial -c conda-forge -c euro-bioimaging python=3.10 napari=0.4.17 notebook matplotlib jupytext "scikit-image>=0.20" openijtiff napari-plot-profile` and press enter 1. create a directory called `skimage-napari-tutorial` (e.g. on your Desktop) #### Test installation (only once)