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