General settings: | |
-h | Display this help message |
-ver | Display version information |
-i | Use specified file as BioRAT initialisation file |
Template processing: | |
-f | Analyse specified file |
-d | Analyse all text files (*.txt) in specified directory |
-a | Analyse all text files listed in given file |
-t | Specify location of template index file (.xml) |
-o | Specify filename root to store results in |
-g | Specify location of gazetteer index file (.lst) |
-r | Specify target directory in which to store results |
File downloading: | |
-p | Download abstract with given PubMed ID |
-w | Download full length paper from web with corresponding PubMed ID |
-l | Download all abstracts with PMIDs listed in given file (comma- or newline-separated) |
-b | Download full length papers with PMIDs listed in given file (comma- or newline-separated) |
-m | Specify maximum number of simultaneous download operations (default=5) |
-u | Specify username and password (e.g. for firewall access) |