new version

Dockerfile

@@ -1,53 +1,92 @@
-FROM rocker/verse:3.5.2
+FROM rocker/verse:3.3.1
 MAINTAINER "Carl Boettiger" [email protected]
 
+ENV GDAL_VERSION 2.1.3
+ENV GEOS_VERSION 3.5.1
+ENV LD_LIBRARY_PATH=/usr/local/lib:$LD_LIBRARY_PATH
+
+
 RUN apt-get update \
+##  && apt-get build-dep -y -o APT::Get::Build-Dep-Automatic=true libgdal-dev \
   && apt-get install -y --no-install-recommends \
     lbzip2 \
+    ## dev packages
+    libdap-dev \
+    libexpat1-dev \
     libfftw3-dev \
-    libgdal-dev \
-    libgeos-dev \
+    libfreexl-dev \
+#  libgeos-dev \ # Need 3.5, this is 3.3
     libgsl0-dev \
-    libgl1-mesa-dev \
     libglu1-mesa-dev \
     libhdf4-alt-dev \
     libhdf5-dev \
-    libjq-dev \
     liblwgeom-dev \
-    libproj-dev \
-    libprotobuf-dev \
+    libkml-dev \
     libnetcdf-dev \
+    libproj-dev \
     libsqlite3-dev \
     libssl-dev \
+    libtcl8.5 \
+    libtk8.5 \
+    libtiff5-dev \
     libudunits2-dev \
+    libxerces-c-dev \
+   ## runtime packages
     netcdf-bin \
-    protobuf-compiler \
-    tk-dev \
     unixodbc-dev \
+  && wget http://download.osgeo.org/gdal/${GDAL_VERSION}/gdal-${GDAL_VERSION}.tar.gz \
+  && tar -xf gdal-${GDAL_VERSION}.tar.gz \
+  && wget http://download.osgeo.org/geos/geos-${GEOS_VERSION}.tar.bz2 \
+  && tar -xf geos-${GEOS_VERSION}.tar.bz2 \
+## Install dependencies of gdal-$GDAL_VERSION
+## && echo "deb-src http://deb.debian.org/debian jessie main" >> /etc/apt/sources.list \
+## Install libgeos \
+  && cd /geos* \
+  && ./configure \
+  && make \
+  && make install \
+## Configure options loosely based on homebrew gdal2 https://github.com/OSGeo/homebrew-osgeo4mac/blob/master/Formula/gdal2.rb
+  && cd /gdal* \
+  && ./configure \
+    --with-curl \
+    --with-dods-root=/usr \
+    --with-freexl \
+    --with-geos \
+    --with-geotiff \
+    --with-hdf4 \
+    --with-hdf5=/usr/lib/x86_64-linux-gnu/hdf5/serial \
+    --with-libjson-c \
+    --with-netcdf \
+    --with-odbc \
+    ##
+    --without-grass \
+    --without-libgrass \
+  && make \
+  && make install \
+  && cd .. \
+  ## Cleanup gdal & geos installation
+  && rm -rf gdal-* geos-* \
+## Install R packages labeled "core" in Spatial taskview 
   && install2.r --error \
+    ## from CRAN
+    DCluster \
     RColorBrewer \
     RandomFields \
-    RNetCDF \
     classInt \
     deldir \
     gstat \
-    hdf5r \
-    lidR \
-    mapdata \
     maptools \
-    mapview \
     ncdf4 \
     proj4 \
     raster \
     rgdal \
     rgeos \
-    rlas \
     sf \
     sp \
     spacetime \
     spatstat \
     spdep \
+    splancs \
     geoR \
-    geosphere \
     ## from bioconductor
-    && R -e "BiocManager::install('rhdf5')"
+    && R -e "BiocInstaller::biocLite('rhdf5')"