Re: [PyMOL] exporting maps

2015-01-13 Thread Thomas Holder
Hi Daniel,

PyMOL 1.7.4 has a Python API function to access a map as a numpy array: 
cmd.get_volume_field, it takes the name of a map or volume object as its first 
argument. PyMOL doesn't support any map formal for export, but with this 
function you could write your own routine.

Example:

cmd.fetch(1ubq)
cmd.map_new(pseudomap)
data = cmd.get_volume_field(pseudomap)

# grid size
print data.shape

# world-space dimensions
print cmd.get_extent(pseudomap)

# raw data
print data

Hope that helps.

Cheers,
  Thomas

On 09 Jan 2015, at 04:19, Daniel Larsson lars...@xray.bmc.uu.se wrote:

 I have created a pseudo-low resolution electron density map from a PDB-file 
 using the map_new command. Is it possible to export or save that map to a 
 file? Any format should be fine.
 
 Daniel

-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.


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[PyMOL] exporting maps

2015-01-09 Thread Daniel Larsson
I have created a pseudo-low resolution electron density map from a PDB-file 
using the map_new command. Is it possible to export or save that map to a file? 
Any format should be fine.

Daniel
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