Date: September 2023

OzBarley - Elite Panel

This landing page details how to download the imaging data associated with the OzBarley Elite Panel phenotyping experiment performed at The Plant Accelerator.

A list of all files is avaliable at at the following link: https://projects.pawsey.org.au/appf-tpa-ozbarley/elite_panel.ndjson

The file is Newline-Delimited JSON and contains the metadata for each zip file. Each zip will have a name like this: [camera_label]_[id_tag].zip

Where:

• id_tag is the unique identifier for the plant
• camera_label is the label of the imaging angle. One of:

Each zip contains a time series of PNG images taken throughout the experiment.

The following python snippet can be used to download all of the snapshot zip files, or you can browse the files on this page.

import requests
from tqdm import tqdm
from pathlib import Path
import urllib.request
import pandas as pd

bucket_name = 'appf-tpa-ozbarley'
experiment_name = 'elite_panel'
local_base_dir = f"{Path.home()}/Downloads/{bucket_name}"

manifest_url = f"https://projects.pawsey.org.au/{bucket_name}/{experiment_name}.ndjson"

df = pd.read_json(manifest_url, lines=True)

for r, row in tqdm(df.iterrows(),total=df.shape[0]):

    url = f"https://projects.pawsey.org.au/{bucket_name}/{urllib.parse.quote(row['key'])}"
    local = Path(f"{local_base_dir}/{row['key']}")
    urllib.request.urlretrieve(url, local)