You can use the m2p file to tune the size of the datapoint in the x-
and/or y-dimension.
Erik
Carla Jamous skrev 2010-10-05 13.21:
Thank you Justin,
I used an .m2p file to change the properties of my .xpm.
I got an .eps file that I opened with Gimp. In order to visualize this
.eps file, I have to put 200% in Gimp.
But my problem is that my graph is too large, so I can't seem to print
it out.
I really to print the .eps file, so please is there a way to do it or
do I have to split my trajectory and generate many .eps ?
Thanks,
Carla
On Fri, Oct 1, 2010 at 2:34 PM, Justin A. Lemkul <jalem...@vt.edu
<mailto:jalem...@vt.edu>> wrote:
Carla Jamous wrote:
Hi everyone,
Please I need some help visualizing an .xpm file.
I tried to open my .xpm file (g_hbond matrix) with Gimp but It
gives me red lines that I don't understand.
So I converted my .xpm file into an .eps file with xpm2ps.
When I try to open my .eps file, I get the legend:
Hydrogen bonds
white=none
red=Present
And the legend of my axis: x axis=time(ps)
y axis=Hydrogen Bond
index
But I can't see the values: It means I see that there is an
axis but it's a black bold line instead of values of time or
number of atoms in hydrogen bonds.
You're not going to get any numbers in this plot (aside from
hydrogen bond indices). The matrix you're trying to plot is an
existence matrix, a red pixel if the hydrogen bond is present, a
white one if none is present. You can map which hydrogen bond is
which from the hbond.ndx file. That is, once you get it rendered
properly (see below).
Please how can I visualize correctly my matrix?
You can alter its properties (proportions, x/y spacing) with a
.m2p file. There is an example in the online manual. If the plot
is simply a straight line, you'll probably want to decrease the
x-spacing and increase the y-spacing to make it look normal.
-Justin
Thank you
Carla
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu <http://vt.edu> | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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