pxd_private.py

import requests
from multiprocessing import Pool

TOKEN = "eyJhbGciOiJSUzI1NiJ9.<your JWT here>"

def download(f):
    print(f"downloading {f['name']}...")
    try:
        resp = requests.get(f["href"])
        with open(f["name"], 'wb') as file:
            file.write(resp.content)
    except Exception as ex:
        print(f"exception while downloading {f['name']}: {ex}")

if __name__ == '__main__':
    files = 'https://www.ebi.ac.uk/pride/private/ws/archive/v2/projects/<YOUR PXD NUMBER HERE>/files'
    fs = []

    while True:
        f = requests.get(files, headers={'Authorization':f'Bearer {TOKEN}'}).json()
        if '_embedded' not in f:
            break
        files = f['_embedded']['files']
        if len(files) == 0:
            break

        for file in files:
            fs.append({
                'name': file['fileName'],
                'href': file['_links']['download']['href']
            })

        nxt = f['_links']['next']['href']
        files = nxt

    with Pool(processes=8) as pool:
        for x in pool.imap_unordered(download, filter(lambda x: x['name'].endswith('.raw'), fs)):
            pass