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Execution of FreeFlyer from the command line allows for quick, successive running of multiple Mission Plans useful in high performance computing. There are two options available for running FreeFlyer from the command line: FF.exe and FreeFlyer.exe. FF.exe allows execution of FreeFlyer from the command line while hiding the FreeFlyer user interface, allowing for greatly improved processing speeds. Both executables can be run from the command prompt or be called from external programs or batch files. Using a batch file, a user can repeat the same runs many times for automated product generation and automated regression testing. For information on how to run FreeFlyer from the command line with the FreeFlyer user interface, see FreeFlyer.exe.
The FF.exe executable is supported in both Windows and Linux. To call FF.exe from the command line in Windows, two commands can be used analogously: FF.exe or ff. To call the executable from the command line in Linux, only ff can be used. Along with the commands, there are numerous switches that can be used to tell FF.exe what operation the user wishes to perform. Switches follow the command name (ff or FF.exe) on the command line. For example, the Mission Plan switch will tell FF.exe to execute the specified Mission Plan:
Switches may be listed in any order and specified using their full name or abbreviation. Information on the switches available for use with FF.exe can be found by following the links in the list below.
Note: For each of the switches below, the usage is specified using the ff command to call FF.exe. In Windows, the FF.exe command can also be used analogously.