Bob answered to Ravi:
> > load "fileset" " 1.pdb" "2.sdf"; model All;display(*/1, */2.1);hide
> > [LIG]/1;
>
> > when I do this, then all the models get displayed. But when I remove
> > "hide [LIG]/1" everthing works. Could somebody tell me what I am doing
> > wrong ? (please note, [LIG] is a
Ravi, lots of interesting questions here.
Ravi M wrote:
> Hi All,
> I have loaded two models in jmol, and did "model
> All;display(*/1, */2);" I was wondering if it is possible to select
> atoms in model 1 which are at certain distance from atoms in model 2.
>
model 0
should be all y
[found this in my outbox -- never sent?]
OK, thanks, Frieda. I get it. Sure. OK, both those issues -- draw state
and unicode in state are corrected in 11.1.37.
Bob
Frieda Reichsman wrote:
> Not fixed - in 11.1.36 they are rendered as chinese characters. also
> there is a problem with saving
Hi All,
I have loaded two models in jmol, and did "model All;display(*/1,
*/2);" I was wondering if it is possible to select atoms in model 1 which
are at certain distance from atoms in model 2.
Another issue I am having is that if I have multiple models loaded in JMOL
and if I use "hide
For the record, I was wrong about this. The reason this was happening
was that Jmol was not correctly coding unicode. Yes, \u3b1 does encode
alpha, but if that is followed by a number, you have do make sure the
unicode has a complete set of four digits: \u3b13 is most certainly not
the same as
don't get me wrong -- I think unicode is great - just probably not the
thing for superscripts and subscripts.
I know -- you want the superscripts SMALLER - well, a future
improvement, I think.
Angel Herraez wrote:
>On 9 May 2007 at 17:28, Frieda Reichsman wrote:
>
>
>>OK, my guess is that yo
On 9 May 2007 at 17:28, Frieda Reichsman wrote:
> OK, my guess is that you did this with several echos, changing font sizes
> between, and set the
No, no. that's a real label, attached to atomno=3. I wouldn't cheat you.
Just the wonders of Unicode.
I've already put the code in a previous post,
Oh Bob, you are too fast for me...
That way sounds easy and good.
OK, now with my trick. I looked up some Unicode characters for the scripted
numbers.
Last time I did this, I was searching for several arrows, some work, some not.
But the
subscripts and superscripts all work OK. Codes are belo
Ignore Angel. That looks like crap! :)
Just use
label "\u03B13"
and 11.1.37.
Bob
Frieda Reichsman wrote:
> OK, my guess is that you did this with several echos, changing font
> sizes between, and set the echos so that they begin at adjacent
> horizontal points, but vary their vertica
OK, my guess is that you did this with several echos, changing font
sizes between, and set the echos so that they begin at adjacent
horizontal points, but vary their vertical point. Am I right? :)
If you did use echos, did you do this with echos that are fixed in 3D
space to a point, so th
we're hop-skipping emails. I reproduced the problems with the aid of
your excellent scripts and they are both fixed now.
Bob
Frieda Reichsman wrote:
> Hi Bob and everyone,
>
> This is not a problem for me, so I do not need help with it. (But
> thanks). I am able to get the symbol font characte
Hi Bob and everyone,
This is not a problem for me, so I do not need help with it. (But
thanks). I am able to get the symbol font characters to show up
perfectly in my scripts.
I was just trying to contribute to the state saving tests in Jmol by
reporting what seems to be a failure in savi
OK, OK. If you are going to be that way about it
11.1.37 introduces simple standard for labels,
echos, hover, etc.
Very minimal -- just shifting characters up and down with no font size
change. For now that will have to do. No option for amount of lift or drop.
:)
Bob
Angel Herraez wr
Following a recent post by Frieda, I got mad about trying to get
sub/superscripts in labels.
This is great fun!
See attached png image.
Must leave for dinner. Will come back later and explain how I did it...
meanwhile, you can
start a bet ;-D
The following section of this message contains a
can anyone help Frieda with this? I don't think it has anything to do
with Jmol, I don't know what to suggest. according to
http://www.khngai.com/chinese/charmap/tbluni.php?page=0 Chinese unicode
is 0x4E00 - 0x9FFF. None of the characters we are using fall into this
range. Why would her machine
Not fixed - in 11.1.36 they are rendered as chinese characters. also
there is a problem with saving state of a draw command I used. will
send a couple of scripts to you offlist.
Frieda
On May 9, 2007, at May 9, 3:09 PM, Bob Hanson wrote:
My tests indicate this is no problem any more. Rec
My tests indicate this is no problem any more. Records show this was
fixed for 11.1.26. Have you tried 11.1.36? Try that and get back to me,
please. If it still does not work, I need to know what the exact issue
is, since I can't reproduce it here.
Bob
Frieda Reichsman wrote:
> On Mar 20 20
just the sort of thing we want figured out before 11.2. Good.
Frieda Reichsman wrote:
> On Mar 20 2007, Bob wrote:
>
>> To display Greek letters or other special characters in Jmol, simply
>> use the Unicode character "escape" sequence:
>>
>> select (atomno=3);label "alpha \u03B1 beta \u03B2 gamm
On Mar 20 2007, Bob wrote:
To display Greek letters or other special characters in Jmol, simply
use the Unicode character "escape" sequence:
select (atomno=3);label "alpha \u03B1 beta \u03B2 gamma \u03B1
Angstroms \u00C5"
These are not properly saved in terms of the state, though.
I'll look
Thanks, Angel, that will help, but I also need a 4! :(
Feature request, I guess.
Frieda
On May 9, 2007, at May 9, 11:42 AM, Angel Herraez wrote:
Frieda, there is ability to show Unicode characters in labels, and
that has at least superscript 2 and 3. Maybe in that way something
can be done.
I wrote:
>I've tested it on the residue groups that constitute our motifs. I
>find that I have to use something like:
>
>zoom (selected) 0 *10
>
>to get it the right size.
>
>'zoom (selected) 0' certainly zooms it, but I would estimate the
>motif occupies perhaps 1/10 of the area in a particular
David Leader wrote:
>Bob wrote:
>
>
>
>>checked in for Jmol 11.1.36:
>>
>>
>>zoom (atom expression) 0
>>zoomTo timeSec (atom expression) 0
>>
>>zooms to the atom expression, filling the screen (roughly) with that set
>>of atoms.
>>
>>Additional options include any of the following after the zero
Frieda, there is ability to show Unicode characters in labels, and
that has at least superscript 2 and 3. Maybe in that way something
can be done.
El 9 May 2007 a las 9:52, Bob Hanson escribió:
> nope
> Frieda Reichsman wrote:
>
> > Do labels have superscript and subscript capabilities? I don'
Bob wrote:
>checked in for Jmol 11.1.36:
>
>
>zoom (atom expression) 0
>zoomTo timeSec (atom expression) 0
>
>zooms to the atom expression, filling the screen (roughly) with that set
>of atoms.
>
>Additional options include any of the following after the zero:
>
>+ x
>- x
>* x
>/ x
Wow! Thanks Bo
nope
Frieda Reichsman wrote:
> Do labels have superscript and subscript capabilities? I don't see any
> documentation, just wondering if it might have been implemented
> somewhere along the way without notice.
>
> Frieda
>
>
> ///
>
>
> Frieda Reichsman
>
Rolf, Ah! I know what it is. Alright, this is IMPORTANT. We need lots of
input on this.
Jmol 11.1 has two perspective models -- 10 and 11.
set perspectiveModel 10
is the default because of compatibility issues with Jmol 10. The problem
with this model is that it is nonlinear.
set perspectiveM
Do labels have superscript and subscript capabilities? I don't see
any documentation, just wondering if it might have been implemented
somewhere along the way without notice.
Frieda
///
Frieda Reichsman
Molecules in Motion
Interactive Molecular Struc
Rolf Huehne wrote:
>Bob Hanson wrote:
>
>
>>checked in for Jmol 11.1.36:
>>
>>
>>zoom (atom expression) 0
>>zoomTo timeSec (atom expression) 0
>>
>>zooms to the atom expression, filling the screen (roughly) with that set
>>of atoms.
>>
>>
>>
>>
>I tried several examples and the zoom level
Bob Hanson wrote:
> checked in for Jmol 11.1.36:
>
>
> zoom (atom expression) 0
> zoomTo timeSec (atom expression) 0
>
> zooms to the atom expression, filling the screen (roughly) with that set
> of atoms.
>
>
I tried several examples and the zoom level wasn't as expected.
The atoms filled only
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