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Software at CIS : lddmm-landmark : Input File Formats

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This page describes the input formats that LDDMM-Landmark can operate on.

Standard Landmark File Format:

The format for an input landmark file is as follows:


  Landmarks-1.0
  N
  Label_1
  Landmark 1
  .
  .
  Label_i
  Landmark i
  .
  .
  Label_N
  Landmark N
Where
  • N is the number of landmarks in the file
  • Label_i is a label for the ith landmark with no whitespaces. Note that the label is not important for the matching; the order of the landmarks is what counts.
  • Landmark i is the ith landmark. The format should be: 
    
x  y  z valid dummy
    Consists of 3 whitespace-delimited double-precision floating point numbers x, y, z, a "valid" flag (0/1), and a dummy number (usually set to 1).

Landmarks with Covariances File Format:

The format for an input landmark file is as follows:


  LandmarksWithVariability
  N
  Label_1
  Landmark 1
  .
  .
  Label_i
  Landmark i
  .
  .
  Label_N
  Landmark N
Where
  • LandmarksWithVariability is the string "LandmarksWithVariability"
  • N is the number of landmarks in the file
  • Label_i is a label for the ith landmark with no whitespaces. Note that the label is not important for the matching; the order of the landmarks is what counts.
  • Landmark i is the ith landmark and its covariance data. The format should be: 
    
x  y  z valid dummy cov1 cov2 ... cov9
    Consists of 3 whitespace-delimited double-precision floating point numbers x, y, z, a "valid" flag (0/1), a dummy value (usually 1), and the 3x3 covariance matrix.

LDDMM-Similitude File Format:

The format for an landmark file written out by LDDMM-Similitude, which can be used as input to LDDMM-Landmark is as follows:

 N x 3
 [ x_1 y_1 z_1
   x_2 y_2 z_2
   .
   .
   x_N y_N z_N ]

LDDMM-Similitude File Format with Covariances:

The format for an landmark file written out by LDDMM-Similitude, to which covariance values can be added and used as input to LDDMM-Landmark is as follows:

 N x 3
 [ x_1 y_1 z_1
   x_2 y_2 z_2
   .
   .
   x_N y_N z_N ]
 [ c_1_1 c_1_2 ... c_1_9
   c_2_1 c_2_2 ... c_2_9
   .
   .
   c_N_1 c_N_2 ... c_N_9 ]

Last Modified: Monday, 25th April, 2011 @ 11:20am

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