Installation Process

Repo is a python package. Installation process can be automated via bash .sh file in the environment_setup folder.

1) Code Download

Clone the github repository (Entire project in one folder) by running:

# Clone The repo localy to your computer
git clone https://github.com/Merck/3D_Tumor_Lightsheet_Analysis_Pipeline.git

# Navigate to the repo folder
cd 3D_Tumor_Lightsheet_Analysis_Pipeline

2) Dependencies Installation:

When installing the package:

MAC/LINUX Users

2.1) Make sure you have conda installed on your computer. if not, you may use this link.

2.2) Create a python environment
Run in the terminal:
```
source environment_setup/set_3d_infrastructure.sh
```
Windows Users

2.1) Make sure you have conda installed on your computer. if not, you may use this link.

2.2) Create a python environment run all lines of environment_setup/set_3d_infrastructure.sh manually in the terminal