Reproducibility

This repository contains all the raw data and code used in the paper titled:

"Physiological and growth responses of tropical dry forest tree seedlings to water and nutrient additions: comparisons between nitrogen fixers and non-fixers".

You can report any issue with the repository to erickcamo19@gmail.com

Or visit the github repository at https://github.com/ecamo19/physiolocal_responses_tropical_dry_forest_reproducible_statss

For reproducing the results in the repository, two options have been implemented:

1) Binder

To run the binder enviroment visit the webside:

https://mybinder.org/v2/gh/ecamo19/physiolocal_responses_tropical_dry_forest_reproducible_stats/HEAD.

The link will take you to a binder repository where the code can be run.

The image takes approximately 10-20 minutes to build.

Inside the repository, go to the folder called notebooks. There you will find .html and .ipynb files. Both contain the same code, their only difference is that the .ipynb files can be used to execute and modify the code.

Press crtl + enter to run each cell (chunk) inside the .ipynb notebooks.

2) Pixi dev (*Recommended)

First, you have to install pixi into your local machine. To do it, please follow the developers guide found at https://pixi.sh/latest/.

Second, download this repository. Do not modify anything inside the folder.

You can download the github repository by entering:

git clone ecamo19/physiolocal_responses_tropical_dry_forest_reproducible_stats

In your terminal (macOS or Linux) or your command prompt (windows) set the working to the downloaded repository.

For example, if you downloaded the repository to your Downloads folder, enter:

cd ~/Downloads/physiolocal_responses_tropical_dry_forest_reproducible_stats/

Once you have setup your the working directory to the downloaded repository, enter:

pixi shell

and then, to view the code enter:

pixi run jupyter notebook

Finally, to execute the code in each .ipynb make sure the notebook is Trusted (if a Not Trusted flag shows up inside the notebook, change it to Trusted by clicking over it. This is located at the top right) and the kernel R (Pixi) is selected.

You can see the Kernels available by clicking the Kernel tap and then clicking the Change kernel tab.