R help - Feb 2011 - Setting maximum value of the legend on an image.plot and animation

Hello,

I'm doing the following:

library(ncdf)
library(fields)
library(animation)

saline <-  open.ncdf("salinity_1990.nc")
salt = get.var.ncdf(nc=saline, varid="Salinity")

# create an animation of the complete temporal domain in the ncdf file.
saveHTML({

        for (i in 1:364) {
          image.plot(salt[, , i])
      }
    }, img.name = "salinity.img", imgdir = "salinity_dir",
htmlfile "salinity.html", zmax = c(0, 80),
       autobrowse = FALSE, title = "TIME SALINITY PREDICTIONS",
        description = c("This should plot 1 years daily salinity
predictions in Florida Bay")
      )

Almost all of the data sets I work with are multi-temporal spatial forms.
Being able to view the time sequence is very important to us, The animation
procedure is very good. I appreciate its development.

Here are my questions.
1) I would like to find a procedure to set the maximum value of the legend
of an image.plot.  Each time step has a different maximum value, but for
the animation to be valuable, I need to standardize these to a maximum such
that the scale is equal in each time step.

2)  Secondly, when setting imgdir it only goes to a temp directory.  If I
define a directory, the new directory path is added to the default temp
directory path.  Is there a way to fix this so that the output directory is
truly defined in the saveHTML statements?

I'm working on a windows XP machine using R 2.12.1.


Thanks
Steve


Steve Friedman Ph. D.
Ecologist  / Spatial Statistical Analyst
Everglades and Dry Tortugas National Park
950 N Krome Ave (3rd Floor)
Homestead, Florida 33034

Steve_Friedman at nps.gov
Office (305) 224 - 4282
Fax     (305) 224 - 4147

On 01.02.2011 16:10, Steve_Friedman at nps.gov wrote:
>
> Hello,
>
> I'm doing the following:
>
> library(ncdf)
> library(fields)
> library(animation)
>
> saline<-  open.ncdf("salinity_1990.nc")
> salt = get.var.ncdf(nc=saline, varid="Salinity")
>
> # create an animation of the complete temporal domain in the ncdf file.
> saveHTML({
>
>          for (i in 1:364) {
>            image.plot(salt[, , i])
>        }
>      }, img.name = "salinity.img", imgdir =
"salinity_dir", htmlfile > "salinity.html", zmax = c(0,
80),
>         autobrowse = FALSE, title = "TIME SALINITY PREDICTIONS",
>          description = c("This should plot 1 years daily salinity
> predictions in Florida Bay")
>        )
>
> Almost all of the data sets I work with are multi-temporal spatial forms.
> Being able to view the time sequence is very important to us, The animation
> procedure is very good. I appreciate its development.
>
> Here are my questions.
> 1) I would like to find a procedure to set the maximum value of the legend
> of an image.plot.  Each time step has a different maximum value, but for
> the animation to be valuable, I need to standardize these to a maximum such
> that the scale is equal in each time step.

Specify the breaks manually using the argument "breaks" that can be 
passed to "..." in image.plot().

> 2)  Secondly, when setting imgdir it only goes to a temp directory.  If I
> define a directory, the new directory path is added to the default temp
> directory path.  Is there a way to fix this so that the output directory is
> truly defined in the saveHTML statements?

I don't see a way, so just ask the maintainer of the animation package 
to allow for absolute paths or so.

Uwe Ligges

> I'm working on a windows XP machine using R 2.12.1.
>
>
> Thanks
> Steve
>
>
> Steve Friedman Ph. D.
> Ecologist  / Spatial Statistical Analyst
> Everglades and Dry Tortugas National Park
> 950 N Krome Ave (3rd Floor)
> Homestead, Florida 33034
>
> Steve_Friedman at nps.gov
> Office (305) 224 - 4282
> Fax     (305) 224 - 4147
>
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