Difference between revisions of "Save"

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(DESCRIPTION)
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complete PyMOL state is always saved to the file (the selection and
 
complete PyMOL state is always saved to the file (the selection and
 
state parameters are thus ignored).
 
state parameters are thus ignored).
   
+
 
 +
If aligning two structures
 +
<source lang="python">
 +
  align proteinA, proteinB, object=A_on_B
 +
</source>
 +
a clustal formatted alignment file can be written
 +
<source lang="python">
 +
save A_aligned_with_B.aln, A_on_B
 +
</source>
 +
 
 
===USAGE===
 
===USAGE===
 
<source lang="python">
 
<source lang="python">

Revision as of 08:25, 11 September 2009

DESCRIPTION

save writes selected atoms to a file. The file format is autodetected if the extesion is ".pdb", ".pse", ".mol", ".mmod", or ".pkl"

Note that if the file extension ends in ".pse" (PyMOL Session), the complete PyMOL state is always saved to the file (the selection and state parameters are thus ignored).

If aligning two structures

 align proteinA, proteinB, object=A_on_B

a clustal formatted alignment file can be written

save A_aligned_with_B.aln, A_on_B

USAGE

save file [,(selection) [,state [,format]] ]

PYMOL API

cmd.save(file, selection, state, format)

NOTES

  • When saving a session file, then "state" has no effect.
  • When state = 0 (default), only the current state is written.
  • When state = -1, then a multi-state output file is written (PDB only).
  • In versions 1.XX, a multi-state output file is written when state = 0 (which is not default)

SEE ALSO

  Load, Get Model