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plotLayersForTimestep.r
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plotLayersForTimestep.r
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# modified from plotLayersForTimestep.r.1
# * move device control outside of these methods
# * refactor code for plotting single dataset, for reuse
library(fields)
# double-sprintf-ing to set precision by constant: cool or brittle?
stats.precision <- 3 # sigdigs to use for min, median, max of obs
stat.str <- sprintf('%%.%ig', stats.precision)
# use these in function=subtitle.stats as sprintf inputs
max.str <- sprintf('max=%s', stat.str)
med.str <- sprintf('med=%s', stat.str)
min.str <- sprintf('min=%s', stat.str)
plot.layers.for.timestep <- function(
datavar, # data variable
datavar.name, # string naming the datavar # TODO: get from datavar
datavar.parent, # file object containing the datavar
i.timestep=1, # index of timestep to plot
n.layers=0, # max number of layers (in timestep) to plot
attrs.list, # list of global attributes
# TODO: handle when null!
q.vec=NULL, # quantile bounds
l2d.fp=NULL, # maps layer# to crop description
colors,
map
) {
for (i.layer in 1:n.layers) {
# debugging
# i.layer <- 1
# get title string:
# minimally:
title <- sprintf('%s: layer#=%2i', datavar.name, i.layer)
if (!is.null(l2d.fp)) { # TODO: test file readability
l2d.env <- readRDS(l2d.fp) # TODO: test me!
title <- sprintf('%s (%s)',
title, l2d.env[[as.character(i.layer)]])
} else {
cat(sprintf(
'ERROR: plot.layers.for.timestep: no file mapping layer#s to descriptions\n'))
}
attr.list <-
ncatt_get(datavar.parent, varid=datavar.name, attname="units")
if (attr.list$hasatt) {
title <- sprintf('%s, units=%s', title, attr.list$value)
} else {
cat(sprintf(
'ERROR: plot.layers.for.timestep: no units for var=%s\n',
datavar.name))
}
data <- datavar[,,i.layer]
# start debugging for Doug Nychka Mon, 13 Feb 2012 21:33:36 -0700
# print(paste('class(data)==', class(data), sep=""))
# end debugging for Doug Nychka Mon, 13 Feb 2012 21:33:36 -0700
# get stats for subtitle
# to put under title, just create second line (thanks, Doug Nychka)
title <- sprintf('%s\n%s', title, subtitle.stats(data))
plot.layer(data,
title=title,
attrs.list=attrs.list,
q.vec=q.vec,
colors=colors,
map=map)
} # end interating layers
} # end function plot.layers.for.timestep
subtitle.stats <- function(vec) {
return.str <- ""
# is it numeric, and not empty?
if (is.numeric(vec) && sum(!is.na(vec))) {
# unsparse.vec <- subset(vec, !is.na(vec)) # fail: intended for interactive use
# unsparse.vec <- na.omit(vec) # fail: omits all *rows* containing an NA!
grids <- length(vec)
grids.str <- sprintf('(of cells=%i)', grids)
unsparse.vec <- vec[!is.na(vec)]
obs <- length(unsparse.vec)
obs.str <- sprintf('obs=%i', obs)
# use constants defined above. TODO: compute these once!
max.str <- sprintf(max.str, max(unsparse.vec))
med.str <- sprintf(med.str, median(unsparse.vec))
min.str <- sprintf(min.str, min(unsparse.vec))
return.str <-
sprintf('%s %s: %s, %s, %s',
obs.str, grids.str, min.str, med.str, max.str)
} else {
return.str <-"no data"
}
return.str
} # end function subtitle.stats
plot.before.and.after.layers.for.timestep <- function(
source.datavar, # source/unmodified data variable
target.datavar, # target/modified data variable
datavar.name, # string naming the datavar
i.timestep=1, # index of timestep to plot
datavar.n.layers, # max number of layers (in timestep) to plot
attrs.list, # list of global attributes
q.vec=NULL, # for quantiles # TODO: handle when null!
colors,
map
) {
for (i.layer in 1:datavar.n.layers) {
# debugging
# i.layer <- 1
# source.data <- source.datavar[,,i.layer,i.timestep]
source.data <- source.datavar[,,i.layer]
# target.data <- target.datavar[,,i.layer,i.timestep]
target.data <- target.datavar[,,i.layer]
# start debugging for Doug Nychka Mon, 13 Feb 2012 21:33:36 -0700
# print(paste('class(source.data)==', class(source.data), sep=""))
# print(paste('class(target.data)==', class(target.data), sep=""))
# end debugging for Doug Nychka Mon, 13 Feb 2012 21:33:36 -0700
source.title <-
sprintf('%s original: layer#=%2i', datavar.name, i.layer)
# source.title <-
# sprintf('%s original: layer#=%2i (%s) # when we have the crop name
target.title <-
sprintf('%s modified: layer#=%2i', datavar.name, i.layer)
# target.title <-
# sprintf('%s modified: layer#=%2i (%s) # when we have the crop name
attr.list <-
ncatt_get(datavar.parent, varid=datavar.name, attname="units")
if (attr.list$hasatt) {
source.title <-
sprintf('%s, units=%s', source.title, attr.list$value)
target.title <-
sprintf('%s, units=%s', target.title, attr.list$value)
} else {
cat(sprintf(
'plot.layers.for.timestep: ERROR: no units for var=%s\n',
datavar.name))
}
plot.layer(source.data,
title=source.title,
# sub="subtitle",
sub=subtitle.stats(data),
attrs.list=attrs.list,
q.vec=q.vec,
colors=colors,
map=map)
plot.layer(target.data,
title=target.title,
# sub="subtitle",
sub=subtitle.stats(data),
attrs.list=attrs.list,
q.vec=q.vec,
colors=colors,
map=map)
} # end interating layers
} # end function plot.before.and.after.layers.for.timestep
plot.layer <- function(
data, # data to plot (required)
title, # string for plot title (required?)
# TODO: handle when null!
subtitle=NULL, # string for plot subtitle
attrs.list=NULL, # list of global attributes (used for plotting)
q.vec=NULL, # for quantiles
colors,
map
) {
x.centers <- attrs.list$x.cell.centers.km
y.centers <- attrs.list$y.cell.centers.km
if (sum(!is.na(data)) && (!is.null(q.vec))) {
plot.list <- list(x=x.centers, y=y.centers, z=data)
quantiles <- quantile(c(data), q.vec, na.rm=TRUE)
quantiles.formatted <- format(as.numeric(quantiles), digits=3)
# start debugging
# print(paste('Non-null image.plot for source layer==', i.layer, ', quantile bounds=='))
# print(quantiles)
# end debugging
if (is.null(subtitle)) {
image.plot(plot.list, xlab="", ylab="", axes=F, col=colors(100),
axis.args=list(at=quantiles, labels=quantiles.formatted),
main=title)
} else {
image.plot(plot.list, xlab="", ylab="", axes=F, col=colors(100),
axis.args=list(at=quantiles, labels=quantiles.formatted),
main=title, sub=subtitle)
}
lines(map)
} else {
# debugging
# print(paste('Null image.plot for source layer=', i.layer))
if (is.null(subtitle)) {
plot(0, type="n", axes=F, xlab="", ylab="",
xlim=range(x.centers), ylim=range(y.centers),
main=title)
} else {
plot(0, type="n", axes=F, xlab="", ylab="",
xlim=range(x.centers), ylim=range(y.centers),
main=title, sub=subtitle)
}
lines(map)
} # end testing data
} # end function plot.layer