# pdbAtomSection

## Usage

    Usage: pdbAtomSection
    Options:
        [-i[nput]            In                  (NULL      )] :Essential :InputDataFile
        [-i[nput of ]f[lags] InFlags             (NULL      )] :Optional  :InputFlagsFile
        [-o[utput]           Out                 (NULL      )] :Essential :OutputDataFile
        [-dist[ance]         distance            (2.5       )] :Optional  :DistanceOfSections
        [-zmin[imum]         zmin                (0.0       )] :Optional  :Minimum of Z
        [-zmax[imum]         zmax                (90.0      )] :Optional  :Maximum of Z
        [-f[lag]m[ode]       flagMode            (13        )] :Optional  :flag mode
        [-r[adius]           radius              (1.0       )] :Optional  :radius of the circle
        [-c[ircle]l[ine]w[idth]clinewidth          (0.1       )] :Optional  :circle line width
        [-p[eptide bond]l[ine]w[idth]plinewidth          (0.1       )] :Optional  :peptide bond line width
        [-fontsize           fontsize            (2.0       )] :Optional  :font size
        [-A[bsolute]S[caleofPSFile]scale               (1.0       )] :Optional  :absolute scale of PS file (-AS 1 := 1 mm/A)
        [-shiftx             shiftx              (0.0       )] :Optional  :pdb Shift x [A]
        [-shifty             shifty              (0.0       )] :Optional  :pdb Shift y [A]
        [-shiftz             shiftz              (0.0       )] :Optional  :pdb Shift z [A]
        [-c[onfig]           configFile          (NULL      )] :Optional  :ConfigurationFile
        [-m[ode]             mode                (0         )] :Optional  :Mode

    format for Flags File
    one line of the file
    chainIdertifier&sequenceNumber(R123) FlagMode circleRedius circlelinewidth fontsize
    FlagMode
         0: display nothing
         1: one char amino acid name
         2: three char amino acid name
         4: chain identifier
         8: sequence number
        16: display any atom
         default: 13 (display R123T)