mpijava 32 -Xmx1024M KStar mpi

java -Xmx1024M KStar

genBackbones System.cfg BBF.cfg

genBackbones System_bb.cfg BBF.cfg

genBackbones System_test.cfg BBF.cfg

doDEE System.cfg DEE.cfg

doDEE System_2pcy.cfg DEE_2pcy.cfg

doDEE System_1pga_surface.cfg DEE_1pga_surface.cfg

doDEE System_1pga_core.cfg DEEbb_1pga.cfg

doResEntropy System1scj.cfg ResEntropy1scj.cfg

compEref System1scj.cfg RefEnergy.cfg

precomputeBackrubs System1amu.cfg 2 4.0 br_1amu.in

selectResidues SystemSelect.cfg SelectResidues.cfg

compStericOverlap SystemLpxCref.cfg SystemLpxC2.cfg StericOverlap.cfg

minimizeSequences System.cfg ms1amu.cfg

generateRandConfs System.cfg minGMEC true leu 100

fitEparams System_1vlt.cfg minGMEC_seq_1vlt conf_info/f true asp 6 false

computeEw System.cfg MutSearch.cfg  

computeMutStats LEU2MUT10Sep05.compmut 9 true  

compareLists KSnew MinDEEnew 40 9

singleKStar System1amu.cfg singleKS.cfg

computeEnergyMol System_2pcy.cfg false none

computeEnergyMol System_eef1.cfg false none

computeEnergyMol System_1pga_Surface.cfg false none

computeEnergyMol System.cfg true phe

KSMaster System.cfg MutSearch.cfg

doSinglePairE System1amu.cfg PrecomputeEnergiesSC1amu.cfg
