Hi Kyle,
the translate command has a camera argument, which controls whether
the vector is in camera space (default) or in model space. You want
model space, so you need:
PyMOLtranslate [1, 0, 0], glycan*, camera=0
Cheers,
Thomas
Kyle Sutherland-Cash wrote, On 04/17/13 19:47:
Hello everyone,
I've been trying to write a script to orient two particular molecules
with respect to one another. I do this by calculating a translation
vector between the two and then using cmd.translate to move the second
object to the desired location. However, this didn't seem to have the
desired effect and moved the second molecule somewhere else.
I investigated further and tried using a translation of [1, 0, 0], which
I supposed would just alter the x coordinate of my molecule. Instead it
translated the molecule by 1A (I checked the magnitude of the actual
translation to be sure) along an arbitrary axis. This axis also changed
after deleting and recreating the object with its original coordinates.
Am I doing something wrong, or did I not understand properly how
translate works? I've pasted some sample input/output just below.
Thanks,
Kyle
First time:
PyMOLiterate_state 1, glycan* and id 1, print x, y, z
3.3945341 1.4326853 -0.0
IterateState: iterated over 1 atom coordinate states.
PyMOLtranslate [1, 0, 0], glycan*
PyMOLiterate_state 1, glycan* and id 1, print x, y, z
3.77618098259 2.14793467522 -0.585493266582
IterateState: iterated over 1 atom coordinate states.
Second time:
PyMOLiterate_state 1, glycan* and id 1, print x, y, z
3.3945341 1.4326853 -0.0
IterateState: iterated over 1 atom coordinate states.
PyMOLtranslate [1, 0, 0], glycan*
PyMOLiterate_state 1, glycan* and id 1, print x, y, z
2.96896576881 2.08610153198 -0.626740753651
IterateState: iterated over 1 atom coordinate states.
--
Thomas Holder
PyMOL Developer
Schrödinger Contractor
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