phylopic-tools

Enhanced search for silhouette images of organisms from PhyloPic.

Easily query all PhyloPic SVGs by calling a Python script, using simplied syntax. Or construct more complex queries in a local SQLite database. phylopic-tools also offers retrieval of organism images by querying higher-level taxonomic names (e.g. Primates), enabled by ETE3 and data from NCBI Taxonomy.

Features:

• Local copy of all PhyloPic SVG images
• SVGs compressed for better page load times
• Get all PhyloPic SVGs by:
  • Organism (e.g. Homo sapiens)
  • Taxonomic descendants (e.g. all Homininae, or all Primates)
  • License (e.g. public domain)
  • Creator (e.g. T. Michael Keesey)

Installation

Local copy of all PhyloPic SVG images

Simply clone this repo:

$ git clone https://github.com/eweitz/phylopic-tools.git

or download and unzip it:

$ curl "https://codeload.github.com/eweitz/phylopic-tools/zip/master" -o "phylopic-tools.zip"
$ unzip phylopic-tools.zip

Enhanced search

To enable querying of PhyloPic SVGs, clone this repo as described above, then:

$ cd phylopic-tools
$ virtualenv -p python3 env
$ pip install -r requirements.txt
$ python3 query.py --create

Examples

All images of human:

python3 query.py --organism "Homo sapiens"

All images of primates:

python3 query.py --organism "Primates" --descendants

All images of chicken or pig:

python3 query.py --organism "Gallus gallus,Sus scrofa"

All images that are in the public domain

python3 query.py --license "zero,mark"

All images of Carnivora that are in the public domain:

python3 query.py --organism "Carnivora" --descendants --license "zero,mark"