belgianbiodiversityplatform / biodiversitybox Goto Github PK

2Gb should be fine, encourage people (in documentation) to configure more if they can.

A simple solution for file sharing

Simple tutorial + FAQ for more advanced concepts?

Or users will have an error message.

(List kept up-to-date for documentation purposes)

• QGIS
• QGIS plugins:
  • OpenLayers
  • GBIF occurrences
• R
• RStudio
• R packages:
  • tidyverse (= bundle of packages for data science we use all the time)
  • rgbif (interface to GBIF)
  • here (for better linking to files)
  • janitor (for data cleaning)
  • magrittr (for double pipe)
  • digest (for creating hashes: useful for making IDs)
  • readxl (for reading Excel files)
  • install.packages(‘sdm’) reproducible and extensible R platform for species distribution modelling
  • install.packages('SSDM') Stacked Species Distribution Models with R
  • install.packages('Markdown') Markdown rendering for R
  • devtools::install_github("inbo/inborutils") collection of useful R utilities and snippets
• Tomcat + IPT (in test mode)
• OpenRefine
• Python 3
• pygbif, python-dwca-reader (in myroot conda environment)
• Chromium or Firefox (with shortcuts to GBIF & co)
• LibreOffice
• CSVKit for CSV manipulation (in myroot conda environment)
• Postgres/postgis
• gdal -> geographical transformations,...
• miniconda, with installed packages:
  • Numpy
  • Pandas
  • Seaborn
  • Jupyter
• inkscape -> vector image adaptations

There's a bio superuser, so you can do whatever you want from your "bio" account.

A "bio" database is already created.

Pandas, PyGBIF, python-dwca-reader, ... others? Consult INBO team?

• Available at http://localhost:8080/ipt
• Account: [email protected] / gbif
• Versio: 2.3.6
• Data dir: /iptdata

Currently, the XFCE4 settings doesn't seem to work.

Current workaround:

$ setxkbmap be

(installed from: https://aur.archlinux.org/packages/openrefine/).

Shortcut already added to Firefox, needs to launch refine at boot

Which one? Consult INBO team!

There's already a myroot env that you can use:

$ source activate myroot

If you want to create a new one:

$ conda create -n my_new_env --clone /opt/anaconda
$ source activate my_new_env`

This is because the guest is 64-bits (cannot change that because Arch is 64-bits only)