Re: [Jmol-users] minimum isosurface resolution

2013-01-14 Thread Robert Hanson
You should be able to set that to whatever you want. Smaller numbers are LOWER resolution. On Mon, Jan 14, 2013 at 9:30 PM, Andriy Zhugayevych wrote: > The minimum isosurface resolution is 1. I mean that the command > "isosurface resolution 0.9 molecular" produces the same surface as the > comm

Re: [Jmol-users] Is there a fix that allows cut and paste from Jmol console to txt editor

2013-01-14 Thread Robert Hanson
This problem basically disappears when using JSmol. On Mon, Jan 14, 2013 at 4:54 PM, Angel Herráez wrote: > Hello, Henry > > Yes, that is becoming a nuisance. > For me (Windows), although copy does not work, selecting the text and > dragging it to a text editor works, depending on the precise t

[Jmol-users] minimum isosurface resolution

2013-01-14 Thread Andriy Zhugayevych
The minimum isosurface resolution is 1. I mean that the command "isosurface resolution 0.9 molecular" produces the same surface as the command "isosurface resolution 1 molecular". For large molecules thus generated surface contains too much vertices to solve some electrostatic problems like coar

Re: [Jmol-users] Future of the Jmol applet == JSmol

2013-01-14 Thread Robert Hanson
Where we cross in the night, Kevin, is in what we imagine people wanting to do with "scripting" I think. While people could tap into the core of JSmol and learn how to manipulate the model directly, writing something that, say, allowed the selection of atoms and then centered the display on them, i

[Jmol-users] JSmol speed varies widely with browser

2013-01-14 Thread Eric Martz
First, let me add my kudos to the ASTONISHING progress Bob has made with JSmol. And Angel, WOW, seeing our old DNA tutorial work without java is also astonishing. In Windows 7, I find huge speed differences between browsers for JSmol. Sorry if this has already been reported. Bottom line: Wind

Re: [Jmol-users] Is there a fix that allows cut and paste from Jmol console to txt editor

2013-01-14 Thread Angel Herráez
Hello, Henry Yes, that is becoming a nuisance. For me (Windows), although copy does not work, selecting the text and dragging it to a text editor works, depending on the precise text editor (cannot give a rule for them, even Word may accept the drag). A colleague using Mac reported this procedu

[Jmol-users] Is there a fix that allows cut and paste from Jmol console to txt editor

2013-01-14 Thread Jakubowski, Henry
Hi all, I followed this email train from July 11 http://web.archiveorange.com/archive/v/SWtc4LOjGeYDB1POuhuh . I used to be able to do this but haven't had the need to until today when I wanted to make a .jvxl file by pasting from the console. No luck. Thanks Henry Jakubowski (CSB/SJU)

Re: [Jmol-users] Java

2013-01-14 Thread Angel Herráez
I'll share my experience in Windows on this issue: Today my Firefox also started blocking the Java plugin I had. After an update from java.com, the plugin is not fully blocked but Firefox is asking for permission to run each instance of Jmol applet (unsigned) -- at least on first use of that app

Re: [Jmol-users] Java

2013-01-14 Thread Oliver Stueker
There was an actively used zero-day exploit in Java 7 that made Apple and Mozilla to black-list the Java 1.7.0_10 plugin: [1] http://www.h-online.com/security/news/item/Java-plugins-unplugged-by-Mozilla-and-Apple-Update-1782628.html However today Oracle has released an update fixing that issue: [2

Re: [Jmol-users] Future of the Jmol applet == JSmol

2013-01-14 Thread Kevin Theisen
Hi Bob, I get it, you are biased towards JSmol as I am biased towards the ChemDoodle Web Components. Certainly you are an authority on Jmol, but when it comes to the ChemDoodle Web Components and to WebGL your knowledge is lacking at best. I'm not interested in starting a flame war here, I only

Re: [Jmol-users] disable pop-up menu in JSmol?

2013-01-14 Thread Bob Hanson
It's the same scripting language. Sent from my stupid iPhone On Jan 14, 2013, at 3:26 AM, "Angel Herráez" wrote: > Quick question: > > Can the (recently implemented) pop-up menu in JSmol be > disabled/enabled? > > It would be good to have that feature and, if possible, to use > something

[Jmol-users] disable pop-up menu in JSmol?

2013-01-14 Thread Angel Herráez
Quick question: Can the (recently implemented) pop-up menu in JSmol be disabled/enabled? It would be good to have that feature and, if possible, to use something similar to the applet method, i.e. "set disablePopupMenu TRUE" in script Another choice would be some tag in the Info variable