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### R code from vignette source 'TrackReconstruction.Snw'
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### code chunk number 1: TrackReconstruction.Snw:313-317
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library(TrackReconstruction)
betas<-Standardize(1,1,-1,1,1,1,-57.8,68.76,-61.8,64.2,-70.16,58.08,-10.1,9.55,
-9.75,9.72,-9.91,9.43)
betas
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### code chunk number 2: TrackReconstruction.Snw:329-333
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data(rawdatagap)
gaps<-GapFinder(rawdatagap, timediff = 1, timeformat = "%d-%b-%Y %H:%M:%S")
if(gaps[1,1]!=0) write.table(gaps, file = "gaps-1.csv", sep=",",row.names=FALSE)
head(gaps)
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### code chunk number 3: TrackReconstruction.Snw:344-347
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data(gpsdata02)
gpsformat<-GPStable(gpsdata02)
head(gpsformat)
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### code chunk number 4: TrackReconstruction.Snw:359-366
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#get declination and inclination data for study area
decinc<-c(10.228,65.918)
#example data set with start and end times corresponding to the first and seventh GPS
#fixes from the gpsdata02 data set, plus additional rows=Hz*RmL*0.5 on each end.
data(rawdata)
DRoutput<-DeadReckoning(rawdata, betas, decinc, Hz = 16, RmL = 2, DepthHz = 1, SpdCalc=3,
MaxSpd=3.5)
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### code chunk number 5: TrackReconstruction.Snw:389-390
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Georeferenced<-GeoReference(DRoutput,gpsformat[5:6,])
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### code chunk number 6: TrackReconstruction.Snw:421-439
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require(scatterplot3d)
require(onion)
require(RColorBrewer)
require(lattice)
library(plotrix)
library(fields)
require(rgl)
library(TrackReconstruction)
#Import data
#setwd("G:\\filepath\\gebco_08")
#bathymetry<- read.table("Gebco1.asc",sep=",",header=TRUE)
#or get the example data from the package
data(bathymetry)
col=gray(0:200/200)
#format data for graphing
image.xyz=tapply(bathymetry$Depth, list(bathymetry$Long, bathymetry$Lat), unique)
#create palatte for depth colors
Bathymetry.palatte<-colorRampPalette(brewer.pal(9, "Blues"),bias=3)
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### code chunk number 7: fig1plot
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image.plot(x=as.numeric(dimnames(image.xyz)[[1]]),
y=as.numeric(dimnames(image.xyz)[[2]]),
z=image.xyz,
col=c(rev(Bathymetry.palatte(100)),#gray(0:20/20),
terrain.colors(100)),
breaks=round(c(seq(from=min(image.xyz),to=0,length.out=101),
seq(from=max(image.xyz)/101,to=max(image.xyz),length.out=100))),
ylab="",
xlab=""
#,smallplot=2 #plots legend off x axis
)
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### code chunk number 8: TrackReconstruction.Snw:475-481
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data(georef1min01)
limits<-GraphLimits(georef1min01)
Sminlat=limits$miny
Smaxlat=limits$maxy
Sminlong=limits$minx
Smaxlong=limits$maxx
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### code chunk number 9: fig2plot
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scatterplot3d(georef1min01$Longitude,georef1min01$Latitude,(georef1min01$Depth*-1),
color="black",#ifelse(georef1min01$SunTimes==1,"red","black"), shades night
#and day if you have the data
type="l",
lwd=1,
#pch=".",
highlight.3d=F,
angle=55,
xlim=c(Sminlong,Smaxlong),
ylim=c(Sminlat,Smaxlat),
zlim=c(0,-80),
zlab="Depth",
ylab="Latitude",
xlab="Longitude",
#x.ticklabs=round(seq(from=Sminlong,to=Smaxlong, by=(Smaxlong-Sminlong)/4),digits=2),
#y.ticklabs=round(seq(from=Sminlat,to=Smaxlat, by=(Smaxlat-Sminlat)/4),digits=2),
#z.ticklabs=c(-80,-60,-40,-20,0),
cex.lab=1,
cex.axis=1,
cex.symbols=1,
#lab=c(3, 4),
lab.z=5
)
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### code chunk number 10: TrackReconstruction.Snw:514-515
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scatterplot3d(georef1min01$Longitude,georef1min01$Latitude,(georef1min01$Depth*-1),
color="black",#ifelse(georef1min01$SunTimes==1,"red","black"), shades night
#and day if you have the data
type="l",
lwd=1,
#pch=".",
highlight.3d=F,
angle=55,
xlim=c(Sminlong,Smaxlong),
ylim=c(Sminlat,Smaxlat),
zlim=c(0,-80),
zlab="Depth",
ylab="Latitude",
xlab="Longitude",
#x.ticklabs=round(seq(from=Sminlong,to=Smaxlong, by=(Smaxlong-Sminlong)/4),digits=2),
#y.ticklabs=round(seq(from=Sminlat,to=Smaxlat, by=(Smaxlat-Sminlat)/4),digits=2),
#z.ticklabs=c(-80,-60,-40,-20,0),
cex.lab=1,
cex.axis=1,
cex.symbols=1,
#lab=c(3, 4),
lab.z=5
)
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### code chunk number 11: TrackReconstruction.Snw:563-566
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DateData<-seq(ISOdatetime(2009,07,14,00,00,00, tz="GMT"),ISOdatetime(2009,07,28,00,00,00,
tz="GMT"), by="min")
head(DateData)
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