Updated bash script and yml env file to set up python interpreter.

environment.yml

-name: PythonEnv5505v2
-prefix: ./envs/PythonEnv5505v2  # Custom output folder
+name: pyenv5505
+prefix: ./envs/pyenv5505  # Custom output folder
 channels:
   - conda-forge
   - defaults
@@ -11,6 +11,7 @@ dependencies:
   - matplotlib
   - plotly=5.24
   - scipy
+  - sphinx 
   - pip
   - pip:
       - h5py==3.10

setup_env.sh

 #!/bin/bash
 
 # Define the name and location of the environment
-ENV_NAME="PythonEnv5505"
+ENV_NAME="pyenv5505"
 ENV_PATH="./envs/$ENV_NAME"  # Define a custom output folder
 
 # Check if mamba is available and use it instead of conda for faster installation
@@ -19,7 +19,7 @@ $CONDA_COMMAND create -y -p "$ENV_PATH" python=3.11 \
 source activate "$ENV_PATH" || conda activate "$ENV_PATH"
 
 # Install pip packages in one go to avoid repeated initializations
-pip install h5py==3.10 pybis==1.35 igor2 ipykernel
+pip install h5py==3.10 pybis==1.35 igor2 ipykernel sphinx
 
 # Export the environment to a YAML file
 $CONDA_COMMAND env export --prefix "$ENV_PATH" > "$ENV_PATH/environment.yaml"