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Install packages on-the-fly in your session

Choose your language:

Python​

Renku can build an environment based on a Python dependencies file for you (no knowledge of Docker required)!

To get started, see How to create an environment with custom packages installed.

R​

Add packages to your project dependencies

To add packages to your environment, add the packages to the dependencies file: install.R.

To specify your project dependencies in install.R, write the R package installation commands.

Note that the base R install.packages function can only install the latest version of a package on CRAN. To install a specific version, use devtools::install_version. If the package is not on CRAN and exists as a GitHub repo, you can use install_github instead. These two scenarios are shown in the example below.

devtools::install_version("ggplot2",
            version = "3.3.6",
            repos = "http://cran.us.r-project.org",
            upgrade="always")
devtools::install_github("thomasp85/patchwork")

Install the packages

Every time you start or resume the session, install the packages you listed in the dependency file by running the following command in the terminal:

**$** R -f install.R
note

You need to install the dependencies every time you launch or resume your session.

conda​

If your image uses conda as the python package management system, follow the instructions.

Add packages to your project dependencies

To add packages to your environment, add the packages to the dependencies file: environment.yml.

To add your project’s dependencies to environment.yml, specify an environment name and then a list of dependencies.

name: stats
dependencies:
- numpy
- pandas

For more details, see conda’s documentation.

Install the packages

Install the packages you listed in the dependency file by running the following command in the terminal:

**$** conda env update --file environment.yml  --prune
note

You need to install the dependencies every time you launch or resume your session.