file: Path to Nonmem-created file. Typically an output control stream.
use.input: Scan input data for updates too? Default is TRUE.
nminfo.input: If you do want to take into account input data but avoid re-reading the information, you can pass the NMdata meta data object.
file.mod: The input control stream
tz.lst: If files are moved around on or between file systems, the file modification time may not be reflective of the Nonmem runtime. In that case, you can choose to extract the time stamp from the output control stream. The issue is that Nonmem does not write the time zone, so you have to pass that to checkTimes if this is wanted.