These are chat archives for fiji/fiji
import imagejyou are importing the pyimagej package.
from ij import ImagePlusor something like that—which will only work in Jython scripting and not the regular C version of Python—you are importing the
conda install -c conda-forge pyimagej openjdk=8
My goal is to access the fiji API through the conda environment
Let’s take a step back. What are you trying to accomplish? You want to combine ImageJ/Fiji with Python ecosystem libraries like scikit-image? Or just write scripts in the Python language using the ImageJ API because you like Python? Or something else?
$ echo "$CONDA_EXE" /usr/local/miniconda3/bin/conda
conda create -n beakerx beakerx openjdk=8 conda activate beakerx
ij = imagej.initbecause that is a pyimagej thing.
jupyter. Explain what you ultimately want to achieve. Why are you using Python? Do you need to combine with other Python libraries? If so, which ones?