doc/SmallTools/pdb2mrc2dWithCTF.html

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   2 <HEAD>
   3 <TITLE>pdb2mrc2dWithCTF</TITLE>
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   5 <BODY>
   6 <H1>pdb2mrc2dWithCTF</H1>
   7 <H2>Usage</H2>
   8 <PRE>
   9 Usage: pdb2mrc2dWithCTF
  10 Options:
  11     [-i[nput]            In                  (NULL      ).as(inFile              ) ] :Essential :Input: PDB
  12     [-o[utput]           Out                 (NULL      ).as(outFile             ) ] :Essential :Output: MRC
  13     [-N                  Nx                  (2048      ).as(Integer             )
  14                          Ny                  (2048      ).as(Integer             ) ] :Optional  :Input: Nx Ny [pixel]
  15     [-d                  dx                  (1.72      ).as(Real                )
  16                          dy                  (1.72      ).as(Real                ) ] :Optional  :Input: dx dy [A]
  17     [-Centre             cx                  (0         ).as(Real                )
  18                          cy                  (0         ).as(Real                )
  19                          cz                  (0         ).as(Real                ) ] :Optional  :Input: CentreX CentreY [A]
  20     [-n                  nx                  (64        ).as(Integer             )
  21                          ny                  (64        ).as(Integer             ) ] :Optional  :Input: nx ny for subimage [pixel]
  22     [-kV                 kV                  (200.      ).as(Real                ) ] :Optional  :kV
  23     [-Cs                 Cs                  (1.7       ).as(Real                ) ] :Optional  :Cs
  24     [-d[e]f[ocus]        Defocus             (10000     ).as(Real                ) ] :Optional  :Defocus [A] at z = 0
  25     [-A[overP]           AoverP              (0.07      ).as(Real                ) ] :Optional  :AoverP
  26     [-Ain                Ain                 (0.2       ).as(Real                ) ] :Optional  :Beta: IlluminationAngle [mrad]
  27     [-ctfMode            ctfMode             (33        ).as(Integer             ) ] :Optional  :ctfMode
  28     [-E[uler]A[ngle]     EulerAngle          (XEYS      ).as(String              )
  29                          Rot1                (0         ).as(Real                )
  30                          Rot2                (0         ).as(Real                )
  31                          Rot3                (0         ).as(Real                ) ] :Optional  :EulerAngle: [degree]
  32     [-c[onfig]           configFile          (NULL      ).as(inFile              ) ] :Optional  :ConfigurationFile
  33     [-m[ode]             mode                (0         ).as(Integer             ) ] :Optional  :Mode
  34 ----- Additional Usage -----
  35 </PRE>
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