[kevshaw@451]$ history
     1  less .bashrc
     2  less /etc/bashrc
     3  source /usr/local/bin/iwannadock
     4  cd docking-ex1/
     5  ls
     6  ls -al
     7  less protein.gpf
     8  prepare-dpf4 -r protein.pdbqt -l ligand.pdbqt
     9  ls
    10  less ligand_protein.dpf
    11  autogrid4 -p ligand_protein.dpf
    12  ls
    13  less protein.gpf
    14  prepare-dpf4
    15  prepare-gpf4
    16  autogrid4 -p protein.gpf
    17  ls
    18  autodock4 -p ligand_protein.dpf &
    19  top
    20  w
    21  ls
    22  less ligand_protein.dlg
    23  adt
    24  mkdir blind
    25  cp protein.pdbqt blind/
    26  cp ligand.pdbqt blind/
    27  cd blind
    28  ls
    29  prepare-gpf4 -p spacing='1.0' -p gridcenter='72.783,163.97,27.826' -p npts='84,62,56' -r protein.pdbqt -l ligand.pdbqt
    30  prepare-dpf4 -r protein.pdbqt -l ligand.pdbqt
    31  autogrid4 -p protein.gpf
    32  time autodock4 -p ligand_protein.dpf &
    33  top
    34  prepare-gpf4 -p spacing='1.0' -p gridcenter='72.783,163.97,27.826' -p npts='84,62,56' -r protein.pdbqt -l ligand.pdbqt
    35  less ligand_protein.dlg
    36  ls
    37  less ligand_protein.dlg
    38  adt
    39  ls
    40  cd ..
    41  mkdir new-ligand
    42  cp protein.pdbqt new-ligand/
    43  cd new-ligand/
    44  wget http://files.docking.org/protomers/70/71/43/388707143.mol2.gz
    45  gzip -dv 388707143.mol2.gz
    46  ls
    47  less 388707143.mol2
    48  prepare-ligand4 -A hydrogens -A bonds 388707143.mol2
    49  prepare-ligand4 -A hydrogens -A bonds -l 388707143.mol2
    50  ls
    51  ss 388707143.pdbqt
    52  prepare-gpf4 -p spacing='0.375' -p gridcenter='81.925,158.663,29.175' -p npts='74,84,72' -r protein.pdbqt -l 388707143.pdbqt
    53  prepare-dpf4 -r protein.pdbqt -l 388707143.pdbqt
    54  autogrid4 -p protein.gpf
    55  autodock4 -p 388707143_protein.dpf &
    56  top
    57  less 388707143_protein.dlg
[kevshaw@451]$