Re: [PyMOL] Performance of extended commands vs python function
OK thanks. I haven't seen such performance differences before and couldn't
reproduce it so far. Could you share your script (and data files if possible)
with me?
Thanks,
Thomas
> On Dec 16, 2019, at 5:42 PM, Lorenzo Gaifas wrote:
>
> Yes, it does. Both cases are with the GUI and ewual graphical representation.
>
> On Mon, Dec 16, 2019, 17:37 Thomas Holder
> wrote:
> Hi Lorenzo,
>
> When you say "run from a python script", is that with the graphical GUI? That
> "instant update", does that include instant update of visual representations?
>
> Thanks,
> Thomas
>
>
> > On Dec 13, 2019, at 12:55 PM, Lorenzo Gaifas wrote:
> >
> > Dear Pymol users,
> >
> > I just discovered something I did not expect: the same python function can
> > have extremely different performance when called as a python function or
> > using the pymol api.
> >
> > To be more specific: I have a function func that (among other things) uses
> > cmd.alter several times over a big system to change the properties and
> > representation.
> >
> > If I run it calling func() from a python script, its effects are almost
> > instant. If I call it with cmd.do('func') (or directly from within pymol
> > with func), it’s extremely slow (up to 10 seconds) and Pymol freezes
> > completely during this time.
> >
> > I expected this to be due to an overhead of the api itself, but when I do
> > the same thing with a simpler function, I see no noticeable difference.
> >
> > Why exactly is this happening? And more importantly, how can I get the
> > performance of func even when I call it from within pymol?
> >
> > Thank you,
> > Lorenzo
> >
> > ___
> > PyMOL-users mailing list
> > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
> > Unsubscribe:
> > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
>
> --
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
>
--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.
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Re: [PyMOL] Performance of extended commands vs python function
Yes, it does. Both cases are with the GUI and ewual graphical
representation.
On Mon, Dec 16, 2019, 17:37 Thomas Holder
wrote:
> Hi Lorenzo,
>
> When you say "run from a python script", is that with the graphical GUI?
> That "instant update", does that include instant update of visual
> representations?
>
> Thanks,
> Thomas
>
>
> > On Dec 13, 2019, at 12:55 PM, Lorenzo Gaifas wrote:
> >
> > Dear Pymol users,
> >
> > I just discovered something I did not expect: the same python function
> can have extremely different performance when called as a python function
> or using the pymol api.
> >
> > To be more specific: I have a function func that (among other things)
> uses cmd.alter several times over a big system to change the properties and
> representation.
> >
> > If I run it calling func() from a python script, its effects are almost
> instant. If I call it with cmd.do('func') (or directly from within pymol
> with func), it’s extremely slow (up to 10 seconds) and Pymol freezes
> completely during this time.
> >
> > I expected this to be due to an overhead of the api itself, but when I
> do the same thing with a simpler function, I see no noticeable difference.
> >
> > Why exactly is this happening? And more importantly, how can I get the
> performance of func even when I call it from within pymol?
> >
> > Thank you,
> > Lorenzo
> >
> > ___
> > PyMOL-users mailing list
> > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
> > Unsubscribe:
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
>
> --
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
>
>
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Re: [PyMOL] Performance of extended commands vs python function
Hi Lorenzo,
When you say "run from a python script", is that with the graphical GUI? That
"instant update", does that include instant update of visual representations?
Thanks,
Thomas
> On Dec 13, 2019, at 12:55 PM, Lorenzo Gaifas wrote:
>
> Dear Pymol users,
>
> I just discovered something I did not expect: the same python function can
> have extremely different performance when called as a python function or
> using the pymol api.
>
> To be more specific: I have a function func that (among other things) uses
> cmd.alter several times over a big system to change the properties and
> representation.
>
> If I run it calling func() from a python script, its effects are almost
> instant. If I call it with cmd.do('func') (or directly from within pymol with
> func), it’s extremely slow (up to 10 seconds) and Pymol freezes completely
> during this time.
>
> I expected this to be due to an overhead of the api itself, but when I do the
> same thing with a simpler function, I see no noticeable difference.
>
> Why exactly is this happening? And more importantly, how can I get the
> performance of func even when I call it from within pymol?
>
> Thank you,
> Lorenzo
>
> ___
> PyMOL-users mailing list
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
> Unsubscribe:
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.
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