rangl-holy-plotly-topo.r

library(raadtools)

## Loading required package: raster

## Loading required package: sp

topo <- readtopo("gebco_14")

## Loading required namespace: ncdf4

library(ggpolypath)

## Loading required package: ggplot2

data(gardenstate)
library(dplyr)

## 
## Attaching package: 'dplyr'

## The following objects are masked from 'package:raster':
## 
##     intersect, select, union

## The following objects are masked from 'package:stats':
## 
##     filter, lag

## The following objects are masked from 'package:base':
## 
##     intersect, setdiff, setequal, union

prj <- "+proj=lcc +lat_1=-47 +lat_2=-17 +lat_0=-32 +lon_0=136 +x_0=0 +y_0=0 +ellps=WGS84 +towgs84=0,0,0,0,0,0,0 +units=m +no_defs"
gsdata <- gardenstate %>% transmute(island_ = !hole, x_ = x, y_ = y,  order_ = order, branch_ = group, object_ = id)
gs <- spbabel::sp(gsdata, crs = prj)

library(rangl)

## Warning in rgl.init(initValue, onlyNULL): RGL: unable to open X11 display

## Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE

rgs <- rangl(gs, max_area = 1e8)
## extract unproject topography onto vertex z_
library(rgdal)

## rgdal: version: 1.2-5, (SVN revision 648)
##  Geospatial Data Abstraction Library extensions to R successfully loaded
##  Loaded GDAL runtime: GDAL 2.1.2, released 2016/10/24
##  Path to GDAL shared files: /usr/share/gdal/2.1
##  Loaded PROJ.4 runtime: Rel. 4.9.3, 15 August 2016, [PJ_VERSION: 493]
##  Path to PROJ.4 shared files: (autodetected)
##  Linking to sp version: 1.2-3

xy <- project(as.matrix(rgs$v[, 1:2]), prj, inv = TRUE)
rgs$v$z_ <- extract(crop(topo, extent(xy)), xy)
## plot with rgl, get mesh object as result
mesh <- plot(rgs)

## Joining, by = "object_"

## Joining, by = "triangle_"

library(plotly)

## 
## Attaching package: 'plotly'

## The following object is masked from 'package:ggplot2':
## 
##     last_plot

## The following object is masked from 'package:raster':
## 
##     select

## The following object is masked from 'package:stats':
## 
##     filter

## The following object is masked from 'package:graphics':
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##     layout

# plot point cloud
x <- mesh$vb[1,]
y <- mesh$vb[2, ]
z <- mesh$vb[3,]
m <- matrix(c(x,y,z), ncol=3, dimnames=list(NULL,c("x","y","z")))

# now figure out the colormap
zmean <- apply(t(mesh$it),MARGIN=1,function(row){mean(m[row,3])})

library(scales)
facecolor = colour_ramp(
  brewer_pal(palette="RdBu")(9)
)(rescale(x=zmean))

library(plotly)
plot_ly(
  x = x, y = y, z = z,
  i = mesh$it[1,]-1, j = mesh$it[2,]-1, k = mesh$it[3,]-1,
  facecolor = facecolor,
  type = "mesh3d"
)