See https://sourceforge.net/projects/jmol/files/
There is a feature change:
FEATURE CHANGE: set wireframeRotation expanded to include bioshapes and
isosurfaces
Bug fixes in 3.2.4 and 3.3.4:
bug fix: set wireframeRotation not working ("inMotion" flag not properly
read in Viewer).
bug fix: CIF re
Not sure if / how this would affect the protein, but I think instead of using
"select model=3;"
you need to use
"select 3.0;"
or
"select file=3;"
(those will select all models in the 3rd file, which seems to be your intention
since file nr.3 has 4 models)
-
Hello Liu
Can you be more specific? That would help.
By "multiple layer", do you mean several models (frames) are loaded
together? Or something else?
> http://bdb4.ucsd.edu/bind/surflex.jsp?PDB=1GSI&HET=TMP does not
behave where not all the atoms and bonds in protein are cartooned.
Which pa
OK, so right now I've released these:
jsmol-13.3.4.zip
Jmol-13.3.4
Jmol-13.2.4
and I've got it working to also release
jsmol-13.2.4.zip
Thanks for the comments.
Bob
On Thu, Aug 22, 2013 at 11:18 AM, Rolf Huehne wrote:
> On 08/22/2013 05:56 PM, Angel Herráez wrote:
> >> How important is it
Hi Geoff,
This is a great little widget . I just tried it and I think it is very
useful to directly communicate with RCSB via Jmol.
But, is there a way to directly homology model a protein sequence using the
RCSB to provide a best matching template such that the modeled structured
can be directly
Dear Jmol People,
I've implemented a novel method for evaluating conserved protein
features from databases such as CDD using JSmol. You can check it out
here:
http://bar.utoronto.ca/CDD3D
The user submits a query protein sequence of interest to search for
similar proteins from the RCSB or
Dear Group,
I am a developer in www.bindingdb.org using Jmol for some displays, like
http://bdb4.ucsd.edu/bind/jmol_pdb.jsp?pdbid=1MRS&monomerid=50132286&polymerid=p5494&seq=100&title=pound34Thymidylate%20kinasepound34%20AND%20pound34CHEBI:270373pound34,
and multiple layers http://bdb4.ucs
On 08/22/2013 05:56 PM, Angel Herráez wrote:
>> How important is it that we have a "stable" version of the applet that is
>> different from the
>> "development" version?
>
> Yes, see above.
> What do others think?
>
I think it is very important. If you want to use it in a production
environment s
On 22 Aug 2013, at 17:17, Angel Herráez
wrote:
> Hi Henry!
>
>> Thanks to Bob (!) for implementing easy scaling when exporting to eg VRML.
>
> I missed that update. Can you point me to what it is?
>
set exportScale 8.0
Another useful hint might be eg http://www.netfabb.com/basic.php wh
Sorry, working too fast.
On Thu, Aug 22, 2013 at 10:56 AM, Angel Herráez wrote:
> > Well, actually, "_dev" means we haven't released that version yet. So
> the next will be without _dev
> > -- 13.3.4 and 13.4.4. I made the mistake last release to increase the
> number as well, so that's
> > prob
Hi Henry!
> Thanks to Bob (!) for implementing easy scaling when exporting to eg VRML.
I missed that update. Can you point me to what it is?
> I would be interested how many on this list have already tried this, and what
> sort of models
I played a bit in July, ball and stick or molecular su
> Well, actually, "_dev" means we haven't released that version yet. So the
> next will be without _dev
> -- 13.3.4 and 13.4.4. I made the mistake last release to increase the number
> as well, so that's
> probably what is throwing you off.
OK
> 13.3 is the "stable" version.
> 13.4 is the "de
On 22 Aug 2013, at 11:49, Robert Hanson wrote:
> I have found the book *The Big Switch* fascinating.
> http://www.nicholasgcarr.com/bigswitch/ and recommend it. A bit off-topic
> for this list, but Henry's recent posting re
> http://www.shapeways.com relates precisely to one of the central th
I have found the book *The Big Switch* fascinating.
http://www.nicholasgcarr.com/bigswitch/ and recommend it. A bit off-topic
for this list, but Henry's recent posting re
http://www.shapeways.comrelates precisely to one of the central themes
of the book - that there is
a growing "gift" economy (
Well, actually, "_dev" means we haven't released that version yet. So the
next will be without _dev -- 13.3.4 and 13.4.4. I made the mistake last
release to increase the number as well, so that's probably what is throwing
you off.
13.3 is the "stable" version.
13.4 is the "development version.
Wi
Thanks to Bob (!) for implementing easy scaling when exporting to eg VRML.
This has enabled more reliable success with eg 3D printing (see eg
http://www.ch.imperial.ac.uk/rzepa/blog/?p=11022 ).
I would be interested how many on this list have already tried this, and what
sort of models (ge
> 13.3.4, I think. But what I'm not distinguishing between 13.3 and 13.4 for
> JSmol/HTML5, only the
> Java versions.
Well, if this is introduced in some 13.3.4_dev, I think the description to be
safe should say the next subversion.Otherwise, somone with an older 13.3.4
may xpect it to work. T
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