Electron Microscopy Beam (EMBeam)

embeam is a Python library for modelling beams and lenses in electron microscopy.

Visit the embeam website for a web version of the installation instructions, the reference guide, and the examples archive.

The source code can be found in the embeam GitHub repository.

Table of contents

• Instructions for installing and uninstalling embeam
  • Installing embeam
    • Installing embeam using pip
    • Installing embeam using conda
  • Uninstalling embeam
• Learning how to use embeam

Instructions for installing and uninstalling embeam

Installing embeam

For all installation scenarios, first open up the appropriate command line interface. On Unix-based systems, you could open e.g. a terminal. On Windows systems you could open e.g. an Anaconda Prompt as an administrator.

Installing embeam using pip

Before installing embeam, make sure that you have activated the (virtual) environment in which you intend to install said package. After which, simply run the following command:

pip install embeam

The above command will install the latest stable version of embeam.

To install the latest development version from the main branch of the embeam GitHub repository, one must first clone the repository by running the following command:

git clone https://github.com/mrfitzpa/embeam.git

Next, change into the root of the cloned repository, and then run the following command:

pip install .

Note that you must include the period as well. The above command executes a standard installation of embeam.

Optionally, for additional features in embeam, one can install additional dependencies upon installing embeam. To install a subset of additional dependencies (along with the standard installation), run the following command from the root of the repository:

pip install .[<selector>]

where <selector> can be one of the following:

• tests: to install the dependencies necessary for running unit tests;
• examples: to install the dependencies necessary for executing files stored in <root>/examples, where <root> is the root of the repository;
• docs: to install the dependencies necessary for documentation generation;
• all: to install all of the above optional dependencies.

Alternatively, one can run:

pip install embeam[<selector>]

elsewhere in order to install the latest stable version of embeam, along with the subset of additional dependencies specified by <selector>.

Installing embeam using conda

To install embeam using the conda package manager, run the following command:

conda install -c conda-forge embeam

The above command will install the latest stable version of embeam.

Uninstalling embeam

If embeam was installed using pip, then to uninstall, run the following command:

pip uninstall embeam

If embeam was installed using conda, then to uninstall, run the following command:

conda remove embeam

Learning how to use embeam

For those new to the embeam library, it is recommended that they take a look at the Examples page, which contain code examples that show how one can use the embeam library. While going through the examples, readers can consult the embeam reference guide to understand what each line of code is doing.