documentation updated. How's this?
See
http://www.stolaf.edu/people/hansonr/jmol/docs/?search=temperature
color [temperature-mode]
Color atoms based on an absolute "temperature" scale from blue ("cold", less motion) to red ("hot", more motion) or using a relative "temperature" scale from blue ("coldest", least motion) to red ("hottest", most motion). This presumes crystallographic B-factor information.
where
[temperature-mode] is "fixedTemperature" or "relativeTemperature"
I think that's what we're talking about.
Bob
SourceForge.net wrote:
Bugs item #1007897, was opened at 2004-08-12 13:36
Message generated for change (Comment added) made by migueljmol
You can respond by visiting: https://sourceforge.net/tracker/?func=detail&atid=379133&aid=1007897&group_id=23629
Category: Scripting Group: None
Status: Closed Resolution: Fixed
Priority: 5 Submitted By: Miguel (migueljmol) Assigned to: Miguel (migueljmol) Summary: color absolute temperature
Initial Comment: ---------------------------- Original Message ---------------------------- Subject: [Jmol-users] Re: color schemes From: "Richard Ball" <[EMAIL PROTECTED]> Date: Mon, August 9, 2004 15:28 To: "jmol-users" <[EMAIL PROTECTED]> --------------------------------------------------------------------------
On [2004-Aug-08] Miguel <[EMAIL PROTECTED]> wrote:
Jaime & one of his colleagues replied off-list
suggesting that we have both relative and absolute coloring.
Rather than make this a 'setting' and adding more
hidden state to the system, it seems to me that we would be better off making a new script command.
That'd be fine.
By default, RasMol uses relative values.
Q: Is there another name that we can use? color atoms
absoluteTemperature
color atoms byTempFactorRelative
color atoms byTempFactorValue
??
Q: Should the color scale be red -> blue ? Since we
are talking about 'temperature' I guess that makes sense. But it seems strange (unfortunate) to me that both charge & temp are using red/blue.
Red is commmonly taken to mean "warning -- these atoms are the most mobile ("hottest") and their positions may be unreliable" whereas as blue, denotes "cold" and therefor not very mobile.
Rich
----------------------------------------------------------------------
Comment By: Miguel (migueljmol)
Date: 2004-09-17 19:57
Message:
Logged In: YES user_id=1050060
color fixedTemperature color relativeTemperature
are now implemented
----------------------------------------------------------------------
You can respond by visiting: https://sourceforge.net/tracker/?func=detail&atid=379133&aid=1007897&group_id=23629
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--
Robert M. Hanson, [EMAIL PROTECTED], 507-646-3107 Professor of Chemistry, St. Olaf College 1520 St. Olaf Ave., Northfield, MN 55057 mailto:[EMAIL PROTECTED] http://www.stolaf.edu/people/hansonr
"Imagination is more important than knowledge." - Albert Einstein
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