The script file for execution of EFFold includes following steps:
Put all input files in the same path (or directory) before running the job Make correct links between I/O units and the corresponding I/O files. It includes input sequence (effold.seq) and controling file (effold.in) and all files of energy table used in programs. The input files include dangle.dat, loop.dat, stack.dat, tstack.dat, tloop.dat, miscloop.dat, and SER file of efluct.dat. To use different simulated energy rules, you have to make a correct copy to the file of efluct.dat. For example, to use efluct_200.dat of SER you should make a copy, as indicated by %cp efluct_200.dat efluct.dat
before the link between efluct.dat and unit fort.43.Execute the job on /usr/tmp/~users if you have big files. Return Outputs in the correct path.