File size: 3,356 Bytes
5969b2a 19ee463 5969b2a 19ee463 5969b2a 19ee463 5969b2a | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 | """Download Protocol and SAP PDFs for each row of file.csv.
Outputs go to source/downloads/row_<#>/{protocol,sap}.pdf.
Skips rows with empty links and rows already downloaded.
"""
from __future__ import annotations
import csv
import sys
import time
import urllib.error
import urllib.request
from pathlib import Path
from urllib.parse import urlparse
CSV_PATH = Path(__file__).parent / "file.csv"
OUT_ROOT = Path(__file__).parent / "downloads"
TIMEOUT = 60
RETRIES = 2
SLEEP_BETWEEN = 0.3
UA = (
"Mozilla/5.0 (Macintosh; Intel Mac OS X 10_15_7) "
"AppleWebKit/537.36 (KHTML, like Gecko) Chrome/120.0.0.0 Safari/537.36"
)
def paper_link_slug(link: str) -> str:
path = urlparse((link or "").strip()).path.strip("/")
parts = [p for p in path.split("/") if p]
return "_".join(parts[-2:]) if len(parts) >= 2 else ""
def download(url: str, dest: Path) -> tuple[bool, str]:
if dest.exists() and dest.stat().st_size > 0:
return True, "exists"
req = urllib.request.Request(url, headers={"User-Agent": UA})
last_err = ""
for attempt in range(RETRIES + 1):
try:
with urllib.request.urlopen(req, timeout=TIMEOUT) as resp:
data = resp.read()
dest.write_bytes(data)
return True, f"ok ({len(data)} bytes)"
except urllib.error.HTTPError as e:
last_err = f"HTTP {e.code}"
except (urllib.error.URLError, TimeoutError) as e:
last_err = f"network: {e}"
except Exception as e: # noqa: BLE001
last_err = f"error: {e}"
time.sleep(1 + attempt)
return False, last_err
def main(start_row: int = 3) -> None:
OUT_ROOT.mkdir(exist_ok=True)
with CSV_PATH.open(newline="", encoding="utf-8") as fh:
reader = csv.DictReader(fh)
for row in reader:
num_str = (row.get("#") or "").strip()
if not num_str.isdigit():
continue
num = int(num_str)
if num < start_row:
continue
protocol = (row.get("Study Protocol Link") or "").strip()
sap = (row.get("Protocol+SAP / SAP Link") or "").strip()
if not protocol and not sap:
print(f"[{num}] skip: no links")
continue
slug = paper_link_slug(row.get("Paper Link") or "")
if not slug:
print(f"[{num}] skip: no usable Paper Link")
continue
row_dir = OUT_ROOT / slug
row_dir.mkdir(exist_ok=True)
if protocol:
ok, msg = download(protocol, row_dir / "protocol.pdf")
print(f"[{num}] protocol: {msg}")
if not ok:
(row_dir / "protocol.error.txt").write_text(
f"{protocol}\n{msg}\n", encoding="utf-8"
)
time.sleep(SLEEP_BETWEEN)
if sap:
ok, msg = download(sap, row_dir / "sap.pdf")
print(f"[{num}] sap: {msg}")
if not ok:
(row_dir / "sap.error.txt").write_text(
f"{sap}\n{msg}\n", encoding="utf-8"
)
time.sleep(SLEEP_BETWEEN)
if __name__ == "__main__":
start = int(sys.argv[1]) if len(sys.argv) > 1 else 3
main(start_row=start)
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