Type nano ~/.zshrc to open the configuration of the terminal.

Type in cd to navigate to the home directory.

Intall Mono from mono-project website Mono Macįor macOS Catalina, open the configuration of zsh via the terminal:

Install brew and pkg-config: brew install pkg-config3.

Install pythonnet with pip install pythonnet=2.5.2.

NOTE, the installed mono version should be at least 6.10, which requires you to add the ppa to your trusted sources!

Install Mono from mono-project website Mono Linux.

Copy-paste the Bruker library for feature finding to your /usr/lib folder with sudo cp alphapept/ext/bruker/FF/linu圆4/alphapeptlibtbb.so.2 /usr/lib/libtbb.so.2.

Install libgomp.1 with sudo apt-get install libgomp1.

If you want to use AlphaPept as a package withouth the GUI dependencies and strict version dependencies use pip install alphapept.

Install AlphaPept via pip: pip install 'alphapept'.

Install the build-essentials: sudo apt-get install build-essential.

If AlphaPept is installed correctly, you should be able to import AlphaPept as a package within the environment see below.

If you want to use AlphaPept as a package without the GUI dependencies and without strict version dependencies, use pip install alphapept.

Activate the environment: conda activate alphapept.

Open the console and create a new conda environment: conda create -name alphapept python=3.8.

It is strongly recommended to install AlphaPept in its own environment. alphapept.įor end-users that want to set up a processing environment in Python, the 'alphapept' is the batteries-included-version that you want to use. To use the strict version use the -stable-flag, e.g. However, in order to avoid conflicts with package versions that are too strict, the requirements are not pinned when being installed. This stable version allows having a reproducible workflow. The requirements typically contain pinned versions and will be automatically upgraded and tested with dependabot.

With pacakges for development alphapept ( alphapept respectively.

Therefore, you can install AlphaPept in multiple ways:

Depending on the use case, AlphaPept will need different requirements, and you might not want to install all of them.Ĭurrently, we have the default requirements.txt, additional requirements to run the GUI gui and packages used for developing develop.

See below for additional instructions for Linux and Mac as they require additional installation of Mono to use the RawFileReader.ĪlphaPept can be used as an application as a whole or as a Python Package where individual modules are called. We highly recommend the Anaconda or Miniconda Python distribution, which comes with a powerful package manager. Python Installation Instructions Requirements

Install mono framework mac