import os import re import time import logging import zipfile import requests import bibtexparser from tqdm import tqdm from urllib.parse import quote, urlencode import gradio as gr from bs4 import BeautifulSoup import io # Configure logging logging.basicConfig(level=logging.INFO, format='%(asctime)s - %(levelname)s: %(message)s') logger = logging.getLogger(__name__) class PaperDownloader: def __init__(self, output_dir='papers'): self.output_dir = output_dir os.makedirs(output_dir, exist_ok=True) # Updated download sources self.download_sources = [ 'https://sci-hub.ee/', 'https://sci-hub.st/', 'https://sci-hub.ru/', 'https://sci-hub.ren/', 'https://sci-hub.mksa.top/', 'https://sci-hub.se/', 'https://libgen.rs/scimag/' ] # Request headers self.headers = { 'User-Agent': 'Mozilla/5.0 (Windows NT 10.0; Win64; x64) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/114.0.0.0 Safari/537.36', 'Accept': 'text/html,application/xhtml+xml,application/xml;q=0.9,image/avif,image/webp,*/*;q=0.8' } def clean_doi(self, doi): """Clean and encode DOI for URL""" if not isinstance(doi, str): return None return quote(doi.strip()) if doi else None def download_paper_scihub(self, doi): """Improved method to download paper from Sci-Hub""" if not doi: logger.warning("DOI not provided") return None for base_url in self.download_sources: try: scihub_url = f"{base_url}{self.clean_doi(doi)}" # Request with more tolerance response = requests.get(scihub_url, headers=self.headers, allow_redirects=True, timeout=15) # Search for multiple PDF URL patterns pdf_patterns = [ r'(https?://[^\s<>"]+?\.pdf)', r'(https?://[^\s<>"]+?download/[^\s<>"]+)', r'(https?://[^\s<>"]+?\/pdf\/[^\s<>"]+)', ] pdf_urls = [] for pattern in pdf_patterns: pdf_urls.extend(re.findall(pattern, response.text)) # Try downloading from found URLs for pdf_url in pdf_urls: try: pdf_response = requests.get(pdf_url, headers=self.headers, timeout=10) # Verify if it's a PDF if 'application/pdf' in pdf_response.headers.get('Content-Type', ''): logger.debug(f"Found PDF from: {pdf_url}") return pdf_response.content except Exception as e: logger.debug(f"Error downloading PDF from {pdf_url}: {e}") except Exception as e: logger.debug(f"Error trying to download {doi} from {base_url}: {e}") return None def download_paper_libgen(self, doi): """Download from Libgen, handles the query and the redirection""" if not doi: return None base_url = 'https://libgen.rs/scimag/' try: search_url = f"{base_url}?q={self.clean_doi(doi)}" response = requests.get(search_url, headers=self.headers, allow_redirects=True, timeout=10) response.raise_for_status() if "No results" in response.text: logger.debug(f"No results for DOI: {doi} on libgen") return None soup = BeautifulSoup(response.text, 'html.parser') # Find the link using a specific selector links = soup.select('table.c > tbody > tr:nth-child(2) > td:nth-child(1) > a') if links: link = links[0] pdf_url = link['href'] pdf_response = requests.get(pdf_url, headers=self.headers, allow_redirects=True, timeout=10) if 'application/pdf' in pdf_response.headers.get('Content-Type', ''): logger.debug(f"Found PDF from: {pdf_url}") return pdf_response.content except Exception as e: logger.debug(f"Error trying to download {doi} from libgen: {e}") return None def download_paper_google_scholar(self, doi): """Search google scholar to find an article with the given doi, try to get the pdf""" if not doi: return None try: query = f'doi:"{doi}"' params = {'q': query} url = f'https://scholar.google.com/scholar?{urlencode(params)}' response = requests.get(url, headers = self.headers, timeout = 10) response.raise_for_status() soup = BeautifulSoup(response.text, 'html.parser') # Find any links with [PDF] links = soup.find_all('a', string=re.compile(r'\[PDF\]', re.IGNORECASE)) if links: pdf_url = links[0]['href'] pdf_response = requests.get(pdf_url, headers = self.headers, timeout=10) if 'application/pdf' in pdf_response.headers.get('Content-Type', ''): logger.debug(f"Found PDF from: {pdf_url}") return pdf_response.content except Exception as e: logger.debug(f"Google Scholar error for {doi}: {e}") return None def download_paper_crossref(self, doi): """Alternative search method using Crossref""" if not doi: return None try: # Search for open access link url = f"https://api.crossref.org/works/{doi}" response = requests.get(url, headers=self.headers, timeout=10) if response.status_code == 200: data = response.json() work = data.get('message', {}) # Search for open access links links = work.get('link', []) for link in links: if link.get('content-type') == 'application/pdf': pdf_url = link.get('URL') if pdf_url: pdf_response = requests.get(pdf_url, headers=self.headers) if 'application/pdf' in pdf_response.headers.get('Content-Type', ''): logger.debug(f"Found PDF from: {pdf_url}") return pdf_response.content except Exception as e: logger.debug(f"Crossref error for {doi}: {e}") return None def download_with_retry(self, doi, max_retries=3, initial_delay=2): """Downloads a paper using multiple strategies with exponential backoff""" pdf_content = None retries = 0 delay = initial_delay while retries < max_retries and not pdf_content: try: pdf_content = ( self.download_paper_scihub(doi) or self.download_paper_libgen(doi) or self.download_paper_google_scholar(doi) or self.download_paper_crossref(doi) ) if pdf_content: return pdf_content except Exception as e: logger.error(f"Error in download attempt {retries + 1} for DOI {doi}: {e}") if not pdf_content: retries += 1 logger.warning(f"Retry attempt {retries} for DOI: {doi} after {delay} seconds") time.sleep(delay) delay *= 2 # Exponential backoff return None def download_single_doi(self, doi): """Downloads a single paper using a DOI""" if not doi: return None, "Error: DOI not provided", "Error: DOI not provided" try: pdf_content = self.download_with_retry(doi) if pdf_content: if doi is None: return None, "Error: DOI not provided", "Error: DOI not provided" filename = f"{str(doi).replace('/', '_').replace('.', '_')}.pdf" filepath = os.path.join(self.output_dir, filename) with open(filepath, 'wb') as f: f.write(pdf_content) logger.info(f"Successfully downloaded: {filename}") return filepath, "Successfully downloaded", "" else: logger.warning(f"Could not download: {doi}") return None, f"Could not download {doi}", f"Could not download {doi}" except Exception as e: logger.error(f"Error processing {doi}: {e}") return None, f"Error processing {doi}: {e}", f"Error processing {doi}: {e}" def download_multiple_dois(self, dois_text): """Downloads multiple papers from a list of DOIs""" if not dois_text: return None, "Error: No DOIs provided", "Error: No DOIs provided" dois = [doi.strip() for doi in dois_text.split('\n') if doi.strip()] if not dois: return None, "Error: No valid DOIs provided", "Error: No valid DOIs provided" downloaded_files = [] failed_dois = [] for i, doi in enumerate(tqdm(dois, desc="Downloading papers")): filepath, success_message, fail_message = self.download_single_doi(doi) if filepath: # Unique filename for zip filename = f"{str(doi).replace('/', '_').replace('.', '_')}_{i}.pdf" filepath_unique = os.path.join(self.output_dir, filename) os.rename(filepath,filepath_unique) downloaded_files.append(filepath_unique) else: failed_dois.append(doi) if downloaded_files: zip_filename = 'papers.zip' with zipfile.ZipFile(zip_filename, 'w') as zipf: for file_path in downloaded_files: zipf.write(file_path, arcname=os.path.basename(file_path)) logger.info(f"ZIP file created: {zip_filename}") return zip_filename if downloaded_files else None, "\n".join(downloaded_files), "\n".join(failed_dois) def process_bibtex(self, bib_file): """Process BibTeX file and download papers with multiple strategies""" # Read BibTeX file content from the uploaded object try: with open(bib_file.name, 'r', encoding='utf-8') as f: bib_content = f.read() except Exception as e: logger.error(f"Error reading uploaded file {bib_file.name}: {e}") return None, f"Error reading uploaded file {bib_file.name}: {e}", f"Error reading uploaded file {bib_file.name}: {e}" # Parse BibTeX data try: bib_database = bibtexparser.loads(bib_content) except Exception as e: logger.error(f"Error parsing BibTeX data: {e}") return None, f"Error parsing BibTeX data: {e}", f"Error parsing BibTeX data: {e}" # Extract DOIs dois = [entry.get('doi') for entry in bib_database.entries if entry.get('doi')] logger.info(f"Found {len(dois)} DOIs to download") # Result lists downloaded_files = [] failed_dois = [] # Download PDFs for doi in tqdm(dois, desc="Downloading papers"): try: # Try to download with multiple methods with retries pdf_content = self.download_with_retry(doi) # Save PDF if pdf_content: if doi is None: return None, "Error: DOI not provided", "Error: DOI not provided", None filename = f"{str(doi).replace('/', '_').replace('.', '_')}.pdf" filepath = os.path.join(self.output_dir, filename) with open(filepath, 'wb') as f: f.write(pdf_content) downloaded_files.append(filepath) logger.info(f"Successfully downloaded: {filename}") else: failed_dois.append(doi) logger.warning(f"Could not download: {doi}") except Exception as e: failed_dois.append(doi) logger.error(f"Error processing {doi}: {e}") # Create ZIP of downloaded papers if downloaded_files: zip_filename = 'papers.zip' with zipfile.ZipFile(zip_filename, 'w') as zipf: for file_path in downloaded_files: zipf.write(file_path, arcname=os.path.basename(file_path)) logger.info(f"ZIP file created: {zip_filename}") return zip_filename, "\n".join(downloaded_files), "\n".join(failed_dois), None def create_gradio_interface(): """Create Gradio interface for Paper Downloader""" downloader = PaperDownloader() def download_papers(bib_file, doi_input, dois_input): if bib_file: # Check file type if not bib_file.name.lower().endswith('.bib'): return None, "Error: Please upload a .bib file", "Error: Please upload a .bib file", None zip_path, downloaded_dois, failed_dois, _ = downloader.process_bibtex(bib_file) return zip_path, downloaded_dois, failed_dois, None elif doi_input: filepath, message, failed_doi = downloader.download_single_doi(doi_input) return None, message, failed_doi, filepath elif dois_input: zip_path, downloaded_dois, failed_dois = downloader.download_multiple_dois(dois_input) return zip_path, downloaded_dois, failed_dois, None else: return None, "Please provide a .bib file, a single DOI, or a list of DOIs", "Please provide a .bib file, a single DOI, or a list of DOIs", None # Gradio Interface interface = gr.Interface( fn=download_papers, inputs=[ gr.File(file_types=['.bib'], label="Upload BibTeX File"), gr.Textbox(label="Enter Single DOI", placeholder="10.xxxx/xxxx"), gr.Textbox(label="Enter Multiple DOIs (one per line)", placeholder="10.xxxx/xxxx\n10.yyyy/yyyy\n...") ], outputs=[ gr.File(label="Download Papers (ZIP) or Single PDF"), gr.Textbox(label="Downloaded DOIs/Message"), gr.Textbox(label="Failed DOIs"), gr.File(label="Downloaded Single PDF") ], title="🔬 Academic Paper Batch Downloader", description="Upload a BibTeX file or enter DOIs to download PDFs. We'll attempt to fetch PDFs from multiple sources like Sci-Hub, Libgen, Google Scholar and Crossref. You can use any of the three inputs at any moment.", theme="Hev832/Applio", examples=[ ["example.bib", None, None], # Bibtex File [None, "10.1038/nature12373", None], # Single DOI [None, None, "10.1109/5.771073\n10.3390/horticulturae8080677"], # Multiple DOIs ], css=""" .gradio-container { background-color: #222222; } .gr-interface { max-width: 800px; margin: 0 auto; } .gr-box { background-color: white; border-radius: 10px; box-shadow: 0 4px 6px rgba(0, 0, 0, 0.1); } """, cache_examples = False ) return interface def main(): interface = create_gradio_interface() interface.launch(share=True) if __name__ == "__main__": main()