Andreas, Gilleain, & others,
Agreed -- there is strong demand for annotations within scenes & session
files. Currently this is only possible when you define (or redefine a
scene) using the command line:
scene 001, store, This is the view of the binding site.
And note that you can pass in a multi-line string using Python:
cmd.scene("001","store","This is the view of the binding site.\nPlease note
the ligand in yellow.")
We have much work to do to make annotations more general and more
accessible...
Cheers,
Warren
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DeLano Scientific LLC
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_____
From: pymol-users-boun...@lists.sourceforge.net
[mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf Of Andreas
Forster
Sent: Monday, February 12, 2007 3:32 AM
To: gilleain torrance
Cc: pymol-users@lists.sourceforge.net
Subject: Re: [PyMOL] image metadata plugin
I was actually thinking about a related approach. Could one include a
feature in PyMOL allowing the user to save notes with a session? I've
really come to like saving sessions but going back to them later I often
wonder what the objects are exactly, what the views were meant to represent,
which views are saved, which color scheme I used. Briefly, details that
help recreate scenes or images.
I've sent emails not too long ago arguing that one should simply write
scripts, and all will be obvious. I stand corrected (thanks, Warren)
because it won't. If you're pdb file is gone, your script will only take
you on a long search through the dark corners of all available hard disks
but not to brilliant figures.
Gilleain, I'm not sure you would want to save a session with every png
because that would inflate the size of your image significantly. But it'd
sure be cool to have a snapshot saved in the session file to have a
thumbnail to look at.
Andreas
On 2/12/07, gilleain torrance <gilleain.torra...@gmail.com> wrote:
Hello everybody,
I just had an idea for a plugin, but I know I won't have time to make
it, sooooo...I thought I would mention it in the hope someone else
can. :)
Basically, I often make snapshot images (pngs) of scenes. The problem
with doing this is that I have learned to be careful to make the
filename tell me what it is. For example : nacatgrip_1fmn_201_203.png.
Otherwise, I look at the picture 6 months later and wonder what it
was.
This would be a lot easier if there was a snapshot plugin that could
store an image and metadata about the image - the path to the
structure file, structure names, comments, etc.
In fact, a truly clever thing would be to store the session along with
the image, and you could browse sessions by looking at thumbnail
images...
Anyway, just a thought.
gilleain torrance
