Spatial modeling post modeling figure and table construction

• post-modeling visualization
• environmental correlations
• soil and point map generation
• gridding example plot

In [1]:

load_packages <- function(packages) {
  # Check for uninstalled packages
  uninstalled <- packages[!packages %in% installed.packages()[,"Package"]]
  
  # Install uninstalled packages
  if(length(uninstalled)) install.packages(uninstalled, dependencies = TRUE)

  # Load all packages
  for (pkg in packages) {
    if (!require(pkg, character.only = TRUE, quietly = TRUE)) {
      message(paste("Failed to load package:", pkg))
    }
  }
}

# List of packages to check, install, and load
packages <- c("tidyverse", "mgcv", "stars", "terra",  
              "ggpubr", "patchwork", "janitor", "sf","tidyterra",
              "here","ggpubr","MetBrewer","rnaturalearth",'viridis','broom')

load_packages(packages)

i_am('README.md')

# Setting R options for jupyterlab
options(repr.plot.width = 10, repr.plot.height = 10)

Installing packages into ‘/opt/homebrew/lib/R/4.4/site-library’
(as ‘lib’ is unspecified)

Warning: dependency ‘starsdata’ is not available

also installing the dependencies ‘rJava’, ‘sftime’, ‘areal’, ‘slippymath’, ‘OpenStreetMap’, ‘exactextractr’, ‘gstat’, ‘lwgeom’, ‘ncdfgeom’, ‘raster’, ‘maptiles’

trying URL 'https://cran.rstudio.com/src/contrib/rJava_1.0-11.tar.gz'
Content type 'application/x-gzip' length 634103 bytes (619 KB)
==================================================
downloaded 619 KB

trying URL 'https://cran.rstudio.com/src/contrib/sftime_0.3.0.tar.gz'
Content type 'application/x-gzip' length 89093 bytes (87 KB)
==================================================
downloaded 87 KB

trying URL 'https://cran.rstudio.com/src/contrib/areal_0.1.8.tar.gz'
Content type 'application/x-gzip' length 1408610 bytes (1.3 MB)
==================================================
downloaded 1.3 MB

trying URL 'https://cran.rstudio.com/src/contrib/slippymath_0.3.1.tar.gz'
Content type 'application/x-gzip' length 2670727 bytes (2.5 MB)
==================================================
downloaded 2.5 MB

trying URL 'https://cran.rstudio.com/src/contrib/OpenStreetMap_0.4.0.tar.gz'
Content type 'application/x-gzip' length 2238753 bytes (2.1 MB)
==================================================
downloaded 2.1 MB

trying URL 'https://cran.rstudio.com/src/contrib/exactextractr_0.10.0.tar.gz'
Content type 'application/x-gzip' length 630630 bytes (615 KB)
==================================================
downloaded 615 KB

trying URL 'https://cran.rstudio.com/src/contrib/gstat_2.1-2.tar.gz'
Content type 'application/x-gzip' length 2283118 bytes (2.2 MB)
==================================================
downloaded 2.2 MB

trying URL 'https://cran.rstudio.com/src/contrib/lwgeom_0.2-14.tar.gz'
Content type 'application/x-gzip' length 475042 bytes (463 KB)
==================================================
downloaded 463 KB

trying URL 'https://cran.rstudio.com/src/contrib/ncdfgeom_1.1.6.tar.gz'
Content type 'application/x-gzip' length 4205059 bytes (4.0 MB)
==================================================
downloaded 4.0 MB

trying URL 'https://cran.rstudio.com/src/contrib/raster_3.6-31.tar.gz'
Content type 'application/x-gzip' length 575608 bytes (562 KB)
==================================================
downloaded 562 KB

trying URL 'https://cran.rstudio.com/src/contrib/maptiles_0.8.0.tar.gz'
Content type 'application/x-gzip' length 1113004 bytes (1.1 MB)
==================================================
downloaded 1.1 MB

trying URL 'https://cran.rstudio.com/src/contrib/stars_0.6-7.tar.gz'
Content type 'application/x-gzip' length 4033515 bytes (3.8 MB)
==================================================
downloaded 3.8 MB

trying URL 'https://cran.rstudio.com/src/contrib/tidyterra_0.6.2.tar.gz'
Content type 'application/x-gzip' length 1964051 bytes (1.9 MB)
==================================================
downloaded 1.9 MB

* installing *source* package ‘rJava’ ...
** package ‘rJava’ successfully unpacked and MD5 sums checked
** using staged installation

checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking how to run the C preprocessor... clang -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... 

rm: conftest.dSYM: is a directory
rm: conftest.dSYM: is a directory

yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for string.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both be included... yes
configure: checking whether clang supports static inline...
yes
checking whether setjmp.h is POSIX.1 compatible... yes
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking Java support in R... 

configure: error: absent
R was configured without Java support. Please run
R CMD javareconf
as root to add Java support to R.

If you do not have root privileges, run
R CMD javareconf -e
to set all Java-related variables and then install rJava.
ERROR: configuration failed for package ‘rJava’
* removing ‘/opt/homebrew/lib/R/4.4/site-library/rJava’
* installing *source* package ‘sftime’ ...
** package ‘sftime’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sftime)
* installing *source* package ‘areal’ ...
** package ‘areal’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (areal)
* installing *source* package ‘lwgeom’ ...
** package ‘lwgeom’ successfully unpacked and MD5 sums checked
** using staged installation

configure: CC: clang
configure: CXX: clang++ -std=gnu++17
configure: pkg-config proj exists, will use it
configure: using proj.h.
configure: PROJ: 9.5.1
checking PROJ: checking whether linking against PROJ works:... yes

ld: warning: ignoring duplicate libraries: '-lz'

configure: POSTGIS_PROJ_VERSION: 95
checking for geos-config... /opt/homebrew/bin/geos-config
checking geos-config usability... yes
configure: GEOS: 3.13.0
checking GEOS version >= 3.5.0... yes
checking geos: linking with -L/opt/homebrew/Cellar/geos/3.13.0/lib -lgeos_c... yes
checking for GEOS_init_r in -lgeos_c... yes
configure: Package CPP flags:   -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H
configure: Package LIBS: -L/opt/homebrew/Cellar/proj/9.5.1/lib -lproj -lc++ -lm -ldl -lsqlite3 -L/opt/homebrew/opt/libtiff/lib -ltiff -L/opt/homebrew/opt/zstd/lib -lzstd -L/opt/homebrew/Cellar/xz/5.6.3/lib -llzma -pthread -lpthread -L/opt/homebrew/opt/jpeg-turbo/lib -ljpeg -lz -lcurl -lldap -lz     -L/opt/homebrew/Cellar/geos/3.13.0/lib -lgeos_c
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating src/postgis_config.h

** libs
using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using SDK: ‘MacOSX15.2.sdk’

clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c geodetic.cpp -o geodetic.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c lwgeom.cpp -o lwgeom.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c proj.cpp -o proj.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c geos.cpp -o geos.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c io.cpp -o io.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c sub.cpp -o sub.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/varint.c -o liblwgeom/varint.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_twkb.c -o liblwgeom/lwout_twkb.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwpsurface.c -o liblwgeom/lwpsurface.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwtriangle.c -o liblwgeom/lwtriangle.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmpoly.c -o liblwgeom/lwmpoly.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lookup3.c -o liblwgeom/lookup3.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_wkt.c -o liblwgeom/lwin_wkt.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/gserialized1.c -o liblwgeom/gserialized1.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom.c -o liblwgeom/lwgeom.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/gserialized2.c -o liblwgeom/gserialized2.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwstroke.c -o liblwgeom/lwstroke.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwtin.c -o liblwgeom/lwtin.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_twkb.c -o liblwgeom/lwin_twkb.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_geos_cluster.c -o liblwgeom/lwgeom_geos_cluster.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmsurface.c -o liblwgeom/lwmsurface.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_wrapx.c -o liblwgeom/lwgeom_wrapx.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwiterator.c -o liblwgeom/lwiterator.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_geos_node.c -o liblwgeom/lwgeom_geos_node.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_geojson.c -o liblwgeom/lwout_geojson.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_debug.c -o liblwgeom/lwgeom_debug.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_median.c -o liblwgeom/lwgeom_median.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmval.c -o liblwgeom/lwmval.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwkmeans.c -o liblwgeom/lwkmeans.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_geos.c -o liblwgeom/lwgeom_geos.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_kml.c -o liblwgeom/lwout_kml.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwutil.c -o liblwgeom/lwutil.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwprint.c -o liblwgeom/lwprint.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwrandom.c -o liblwgeom/lwrandom.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmline.c -o liblwgeom/lwmline.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeodetic_tree.c -o liblwgeom/lwgeodetic_tree.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwline.c -o liblwgeom/lwline.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/bytebuffer.c -o liblwgeom/bytebuffer.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeodetic.c -o liblwgeom/lwgeodetic.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/measures.c -o liblwgeom/measures.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_api.c -o liblwgeom/lwgeom_api.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmcurve.c -o liblwgeom/lwmcurve.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwcollection.c -o liblwgeom/lwcollection.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/gbox.c -o liblwgeom/gbox.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwspheroid.c -o liblwgeom/lwspheroid.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_svg.c -o liblwgeom/lwout_svg.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_encoded_polyline.c -o liblwgeom/lwin_encoded_polyline.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_encoded_polyline.c -o liblwgeom/lwout_encoded_polyline.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_geos_split.c -o liblwgeom/lwgeom_geos_split.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/effectivearea.c -o liblwgeom/effectivearea.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwboundingcircle.c -o liblwgeom/lwboundingcircle.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwcurvepoly.c -o liblwgeom/lwcurvepoly.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwlinearreferencing.c -o liblwgeom/lwlinearreferencing.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwunionfind.c -o liblwgeom/lwunionfind.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwchaikins.c -o liblwgeom/lwchaikins.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwalgorithm.c -o liblwgeom/lwalgorithm.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwhomogenize.c -o liblwgeom/lwhomogenize.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_geos_clean.c -o liblwgeom/lwgeom_geos_clean.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/measures3d.c -o liblwgeom/measures3d.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_x3d.c -o liblwgeom/lwout_x3d.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_transform.c -o liblwgeom/lwgeom_transform.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_wkt_lex.c -o liblwgeom/lwin_wkt_lex.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwmpoint.c -o liblwgeom/lwmpoint.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/stringbuffer.c -o liblwgeom/stringbuffer.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwcompound.c -o liblwgeom/lwcompound.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/gserialized.c -o liblwgeom/gserialized.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_wkt.c -o liblwgeom/lwout_wkt.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_wkb.c -o liblwgeom/lwin_wkb.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/ptarray.c -o liblwgeom/ptarray.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_wkb.c -o liblwgeom/lwout_wkb.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwpoly.c -o liblwgeom/lwpoly.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwpoint.c -o liblwgeom/lwpoint.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwout_gml.c -o liblwgeom/lwout_gml.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwgeom_topo.c -o liblwgeom/lwgeom_topo.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwcircstring.c -o liblwgeom/lwcircstring.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -I/opt/homebrew/Cellar/proj/9.5.1/include -I/opt/homebrew/opt/libtiff/include -I/opt/homebrew/opt/zstd/include -I/opt/homebrew/Cellar/xz/5.6.3/include -I/opt/homebrew/opt/jpeg-turbo/include -DHAVE_PROJ_H  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include  -DPOSTGIS_PROJ_VERSION=95 -DUSE_PROJ_H -I/opt/homebrew/Cellar/geos/3.13.0/include -DPOSTGIS_GEOS_VERSION=35 -I./liblwgeom -DHAVE_LIBGEOM_INTERNAL_H -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I'/opt/homebrew/lib/R/4.4/site-library/sf/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c liblwgeom/lwin_wkt_parse.c -o liblwgeom/lwin_wkt_parse.o
clang++ -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -L/opt/homebrew/opt/gettext/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/opt/xz/lib -L/opt/homebrew/lib -o lwgeom.so geodetic.o lwgeom.o RcppExports.o proj.o geos.o io.o sub.o liblwgeom/varint.o liblwgeom/lwout_twkb.o liblwgeom/lwpsurface.o liblwgeom/lwtriangle.o liblwgeom/lwmpoly.o liblwgeom/lookup3.o liblwgeom/lwin_wkt.o liblwgeom/gserialized1.o liblwgeom/lwgeom.o liblwgeom/gserialized2.o liblwgeom/lwstroke.o liblwgeom/lwtin.o liblwgeom/lwin_twkb.o liblwgeom/lwgeom_geos_cluster.o liblwgeom/lwmsurface.o liblwgeom/lwgeom_wrapx.o liblwgeom/lwiterator.o liblwgeom/lwgeom_geos_node.o liblwgeom/lwout_geojson.o liblwgeom/lwgeom_debug.o liblwgeom/lwgeom_median.o liblwgeom/lwmval.o liblwgeom/lwkmeans.o liblwgeom/lwgeom_geos.o liblwgeom/lwout_kml.o liblwgeom/lwutil.o liblwgeom/lwprint.o liblwgeom/lwrandom.o liblwgeom/lwmline.o liblwgeom/lwgeodetic_tree.o liblwgeom/lwline.o liblwgeom/bytebuffer.o liblwgeom/lwgeodetic.o liblwgeom/measures.o liblwgeom/lwgeom_api.o liblwgeom/lwmcurve.o liblwgeom/lwcollection.o liblwgeom/gbox.o liblwgeom/lwspheroid.o liblwgeom/lwout_svg.o liblwgeom/lwin_encoded_polyline.o liblwgeom/lwout_encoded_polyline.o liblwgeom/lwgeom_geos_split.o liblwgeom/effectivearea.o liblwgeom/lwboundingcircle.o liblwgeom/lwcurvepoly.o liblwgeom/lwlinearreferencing.o liblwgeom/lwunionfind.o liblwgeom/lwchaikins.o liblwgeom/lwalgorithm.o liblwgeom/lwhomogenize.o liblwgeom/lwgeom_geos_clean.o liblwgeom/measures3d.o liblwgeom/lwout_x3d.o liblwgeom/lwgeom_transform.o liblwgeom/lwin_wkt_lex.o liblwgeom/lwmpoint.o liblwgeom/stringbuffer.o liblwgeom/lwcompound.o liblwgeom/gserialized.o liblwgeom/lwout_wkt.o liblwgeom/lwin_wkb.o liblwgeom/ptarray.o liblwgeom/lwout_wkb.o liblwgeom/lwpoly.o liblwgeom/lwpoint.o liblwgeom/lwout_gml.o liblwgeom/lwgeom_topo.o liblwgeom/lwcircstring.o liblwgeom/lwin_wkt_parse.o -L/opt/homebrew/Cellar/proj/9.5.1/lib -lproj -lc++ -lm -ldl -lsqlite3 -L/opt/homebrew/opt/libtiff/lib -ltiff -L/opt/homebrew/opt/zstd/lib -lzstd -L/opt/homebrew/Cellar/xz/5.6.3/lib -llzma -pthread -lpthread -L/opt/homebrew/opt/jpeg-turbo/lib -ljpeg -lz -lcurl -lldap -lz -L/opt/homebrew/Cellar/geos/3.13.0/lib -lgeos_c -lgeos_c -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation

ld: warning: ignoring duplicate libraries: '-lc++', '-lgeos_c', '-lz'
installing to /opt/homebrew/lib/R/4.4/site-library/00LOCK-lwgeom/00new/lwgeom/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (lwgeom)
* installing *source* package ‘raster’ ...
** package ‘raster’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using SDK: ‘MacOSX15.2.sdk’

clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c RasterModule.cpp -o RasterModule.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c aggregate.cpp -o aggregate.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c bilinear.cpp -o bilinear.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c broom.cpp -o broom.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c cellRowCol.cpp -o cellRowCol.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c clamp.cpp -o clamp.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c distance.cpp -o distance.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c edge.cpp -o edge.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c focal_fun.cpp -o focal_fun.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c focal_get.cpp -o focal_get.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c focal_sum.cpp -o focal_sum.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c geodesic.c -o geodesic.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c getPolygons.cpp -o getPolygons.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c layerize.cpp -o layerize.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c memory.cpp -o memory.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c modal.cpp -o modal.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c ppmin.cpp -o ppmin.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c raster_aggregate.cpp -o raster_aggregate.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c raster_distance.cpp -o raster_distance.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c rasterize.cpp -o rasterize.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c reclass.cpp -o reclass.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c terrain.cpp -o terrain.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c util.cpp -o util.o
clang++ -std=gnu++17 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2   -c xyCell.cpp -o xyCell.o
clang++ -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -L/opt/homebrew/opt/gettext/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/opt/xz/lib -L/opt/homebrew/lib -o raster.so RasterModule.o RcppExports.o aggregate.o bilinear.o broom.o cellRowCol.o clamp.o distance.o edge.o focal_fun.o focal_get.o focal_sum.o geodesic.o getPolygons.o layerize.o memory.o modal.o ppmin.o raster_aggregate.o raster_distance.o rasterize.o reclass.o terrain.o util.o xyCell.o -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation

installing to /opt/homebrew/lib/R/4.4/site-library/00LOCK-raster/00new/raster/libs
** R
** inst
** byte-compile and prepare package for lazy loading

in method for ‘initialize’ with signature ‘"BasicRaster"’: no definition for class “BasicRaster”
in method for ‘brick’ with signature ‘x="kasc"’: no definition for class “kasc”
in method for ‘brick’ with signature ‘x="grf"’: no definition for class “grf”
in method for ‘coerce’ with signature ‘"STFDF","RasterBrick"’: no definition for class “STFDF”
in method for ‘coerce’ with signature ‘"STSDF","RasterBrick"’: no definition for class “STSDF”
in method for ‘coerce’ with signature ‘"asc","RasterLayer"’: no definition for class “asc”
in method for ‘coerce’ with signature ‘"RasterLayer","asc"’: no definition for class “asc”
in method for ‘coerce’ with signature ‘"kasc","RasterBrick"’: no definition for class “kasc”
in method for ‘coerce’ with signature ‘"kasc","RasterStack"’: no definition for class “kasc”
in method for ‘coerce’ with signature ‘"kde","RasterLayer"’: no definition for class “kde”
in method for ‘coerce’ with signature ‘"grf","RasterBrick"’: no definition for class “grf”
in method for ‘coerce’ with signature ‘"grf","RasterLayer"’: no definition for class “grf”
in method for ‘extent’ with signature ‘x="bbox"’: no definition for class “bbox”
in method for ‘extent’ with signature ‘x="sf"’: no definition for class “sf”
in method for ‘extract’ with signature ‘x="Raster",y="sf"’: no definition for class “sf”
in method for ‘mask’ with signature ‘x="Raster",mask="sf"’: no definition for class “sf”
in method for ‘raster’ with signature ‘x="sf"’: no definition for class “sf”
in method for ‘raster’ with signature ‘x="kasc"’: no definition for class “kasc”
in method for ‘raster’ with signature ‘x="asc"’: no definition for class “asc”
in method for ‘raster’ with signature ‘x="kde"’: no definition for class “kde”
in method for ‘raster’ with signature ‘x="grf"’: no definition for class “grf”
in method for ‘rasterize’ with signature ‘x="sf",y="Raster"’: no definition for class “sf”
in method for ‘setValues’ with signature ‘x="RasterLayerSparse"’: no definition for class “RasterLayerSparse”
in method for ‘stack’ with signature ‘x="kasc"’: no definition for class “kasc”

** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (raster)
* installing *source* package ‘stars’ ...
** package ‘stars’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading

in method for ‘coerce’ with signature ‘"stars","Raster"’: no definition for class “Raster”
in method for ‘coerce’ with signature ‘"stars_proxy","Raster"’: no definition for class “Raster”
in method for ‘coerce’ with signature ‘"stars","SpatRaster"’: no definition for class “SpatRaster”
in method for ‘coerce’ with signature ‘"stars_proxy","SpatRaster"’: no definition for class “SpatRaster”
in method for ‘coerce’ with signature ‘"stars","STFDF"’: no definition for class “STFDF”
in method for ‘coerce’ with signature ‘"stars","Spatial"’: no definition for class “Spatial”

** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (stars)
* installing *source* package ‘tidyterra’ ...
** package ‘tidyterra’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (tidyterra)
* installing *source* package ‘slippymath’ ...
** package ‘slippymath’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (slippymath)
ERROR: dependency ‘rJava’ is not available for package ‘OpenStreetMap’
* removing ‘/opt/homebrew/lib/R/4.4/site-library/OpenStreetMap’
* installing *source* package ‘exactextractr’ ...
** package ‘exactextractr’ successfully unpacked and MD5 sums checked
** using staged installation

configure: exactextractr: 0.10.0
checking for geos-config... /opt/homebrew/bin/geos-config
checking geos-config usability... yes
configure: GEOS version: 3.13.0
checking geos version at least 3.5.0... yes
checking compiling and building against geos_c... yes
configure: PKG_CXX: clang++ -std=gnu++17
configure: PKG_CXXFLAGS: -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include
configure: PKG_LIBS: -L/opt/homebrew/opt/gettext/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/opt/xz/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/geos/3.13.0/lib -lgeos_c
configure: creating ./config.status
config.status: creating src/Makevars

** libs
using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using C++14
using SDK: ‘MacOSX15.2.sdk’

clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exact_extract.cpp -o exact_extract.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c raster_utils.cpp -o raster_utils.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c coverage_fraction.cpp -o coverage_fraction.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c rasterize.cpp -o rasterize.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c resample.cpp -o resample.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/measures.cpp -o exactextract/src/measures.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/box.cpp -o exactextract/src/box.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/cell.cpp -o exactextract/src/cell.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/coordinate.cpp -o exactextract/src/coordinate.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/floodfill.cpp -o exactextract/src/floodfill.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/geos_utils.cpp -o exactextract/src/geos_utils.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/grid.cpp -o exactextract/src/grid.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/perimeter_distance.cpp -o exactextract/src/perimeter_distance.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/raster_cell_intersection.cpp -o exactextract/src/raster_cell_intersection.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/side.cpp -o exactextract/src/side.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/traversal.cpp -o exactextract/src/traversal.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/traversal_areas.cpp -o exactextract/src/traversal_areas.o
clang++ -std=gnu++14 -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG  -I'/opt/homebrew/lib/R/4.4/site-library/Rcpp/include' -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include   -g -O2 -I/opt/homebrew/Cellar/geos/3.13.0/include -fPIC  -g -O2   -c exactextract/src/weighted_quantiles.cpp -o exactextract/src/weighted_quantiles.o
clang++ -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -L/opt/homebrew/opt/gettext/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/opt/xz/lib -L/opt/homebrew/lib -o exactextractr.so RcppExports.o exact_extract.o raster_utils.o coverage_fraction.o rasterize.o resample.o exactextract/src/measures.o exactextract/src/box.o exactextract/src/cell.o exactextract/src/coordinate.o exactextract/src/floodfill.o exactextract/src/geos_utils.o exactextract/src/grid.o exactextract/src/perimeter_distance.o exactextract/src/raster_cell_intersection.o exactextract/src/side.o exactextract/src/traversal.o exactextract/src/traversal_areas.o exactextract/src/weighted_quantiles.o -L/opt/homebrew/opt/gettext/lib -L/opt/homebrew/opt/readline/lib -L/opt/homebrew/opt/xz/lib -L/opt/homebrew/lib -L/opt/homebrew/Cellar/geos/3.13.0/lib -lgeos_c -L/opt/homebrew/Cellar/r/4.4.2_2/lib/R/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation

installing to /opt/homebrew/lib/R/4.4/site-library/00LOCK-exactextractr/00new/exactextractr/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (exactextractr)
* installing *source* package ‘gstat’ ...
** package ‘gstat’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using SDK: ‘MacOSX15.2.sdk’

clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c block.c -o block.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c data.c -o data.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c direct.c -o direct.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c fit.c -o fit.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c gcdist.c -o gcdist.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c getest.c -o getest.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c gls.c -o gls.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c glvars.c -o glvars.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c init.c -o init.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c lm.c -o lm.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c mapio.c -o mapio.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c msim.c -o msim.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c mtrx.c -o mtrx.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c nsearch.c -o nsearch.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c pqueue.c -o pqueue.o
clang -I"/opt/homebrew/Cellar/r/4.4.2_2/lib/R/include" -DNDEBUG -DR_NO_REMAP  -I/opt/homebrew/opt/gettext/include -I/opt/homebrew/opt/readline/include -I/opt/homebrew/opt/xz/include -I/opt/homebrew/include    -fPIC  -g -O2  -c reml.c -o reml.o
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Section 1 - Post spatial modeling visualization

Nitrogen and Phosphorus

showing the relationship between outbreak and nil observations to soil nitrogen and phosphorus

In [2]:

outbreak_model_results <- read_csv(here("output/spatial_modeling/outbreak_model_smooth_estimates.csv"),show_col_types = FALSE) |>
    filter(.smooth %in% c('s(nitrogen)','s(phosphorus)')) |>
    select(.smooth,.estimate,.se,nitrogen,phosphorus) |>
    mutate(model = 'outbreak')


nil_model_results <- read_csv(here("output/spatial_modeling/nil_model_smooth_estimates.csv"),show_col_types = FALSE) |>
    filter(.smooth %in% c('s(nitrogen)','s(phosphorus)')) |>
    select(.smooth,.estimate,.se,nitrogen,phosphorus)  |>
    mutate(model = 'nil')

combine_dat <- rbind(outbreak_model_results,nil_model_results)

In [3]:

combine_dat |> summary()

   .smooth            .estimate             .se             nitrogen         phosphorus         model          
 Length:400         Min.   :-0.51405   Min.   :0.02356   Min.   :0.02263   Min.   :0.00963   Length:400        
 Class :character   1st Qu.:-0.15765   1st Qu.:0.02478   1st Qu.:0.11762   1st Qu.:0.05739   Class :character  
 Mode  :character   Median :-0.03445   Median :0.03381   Median :0.21183   Median :0.10503   Mode  :character  
                    Mean   :-0.04231   Mean   :0.03667   Mean   :0.21182   Mean   :0.10536                     
                    3rd Qu.: 0.06018   3rd Qu.:0.04245   3rd Qu.:0.30533   3rd Qu.:0.15261                     
                    Max.   : 0.59066   Max.   :0.10095   Max.   :0.39963   Max.   :0.21246                     
                                                         NA's   :200       NA's   :200                         

In [4]:

p1 <- combine_dat |>
  filter(.smooth == "s(nitrogen)") |>
  ggplot(aes(x=nitrogen)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se,fill=model),alpha=.2) +
    geom_line(aes(y = .estimate ,color=model),size=1) + 
    theme_pubr() +
    scale_color_manual(values = c('dark grey','red'))  +
    scale_fill_manual(values = c('dark grey','red')) +
    xlab("soil nitrogen (%)") +
    ylab("partial effect") +
    scale_x_continuous(limits = c(0,0.33),breaks = c(0,0.1,0.2,0.3))

p2 <- combine_dat |>
  filter(.smooth == "s(phosphorus)") |>
  ggplot(aes(x=phosphorus)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se,fill=model),alpha=.2) +
    geom_line(aes(y = .estimate ,color=model),size=1) + 
    theme_pubr() +
    scale_color_manual(values = c('dark grey','red'))  +
    scale_fill_manual(values = c('dark grey','red')) +
    xlab("soil phosphorus (%)") +
    ylab("partial effect")  +
    scale_x_continuous(limits = c(0,0.22),breaks = c(0,0.1,0.2))

soil_outbreak_plot <- (p1) / (p2) +
    plot_annotation(tag_levels = 'a')
soil_outbreak_plot

Warning message:
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This warning is displayed once every 8 hours.
Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated. 
Warning message:
Removed 38 rows containing missing values or values outside the scale range (`geom_line()`). 

In [17]:

ggsave(soil_outbreak_plot,
       file=here('output/publication_figures/spatial_modeling_locust_outbreak_with_soil_NTO_PTO.png'),
       width=5,height=10)

Warning message:
“Removed 54 rows containing missing values or values outside the scale range
(`geom_line()`).”
Warning message:
“Removed 7 rows containing missing values or values outside the scale range
(`geom_line()`).”

Other variable visualization – outbreaks

In [3]:

outbreak_model_results <- read_csv(here("output/spatial_modeling/outbreak_model_smooth_estimates.csv"),show_col_types = FALSE)

In [5]:

outbreak_raw_data <- read_csv(here("data/processed/spatial_modeling/spatial_modeling_locust_outbreak_model_data.csv"),show_col_types = FALSE)
outbreak_raw_data

A spec_tbl_df: 6649 × 10

polygon_id	longitude	latitude	nymph_density	nymph_density_count	nymph_density_total_count	ecoregion	bio12	nitrogen	phosphorus
<dbl>	<dbl>	<dbl>	<dbl>	<dbl>	<dbl>	<chr>	<dbl>	<dbl>	<dbl>
162921	137.1195	-33.36002	4	1	1	Eyre and York mallee	331	0.07035461	0.02197414
162960	137.1216	-33.37009	4	1	1	Eyre and York mallee	339	0.06677070	0.01618503
170315	136.9592	-30.26600	4	1	1	Tirari-Sturt stony desert	182	0.03427848	0.01595730
172294	137.0525	-30.07720	4	1	1	Tirari-Sturt stony desert	180	0.03820919	0.01412924
172295	137.0578	-30.07140	4	1	1	Tirari-Sturt stony desert	179	0.03533372	0.01694394
172377	137.0753	-30.05024	4	1	2	Tirari-Sturt stony desert	180	0.06836170	0.03356544
192073	137.1874	-29.89030	4	1	1	Tirari-Sturt stony desert	173	0.03479458	0.01383735
193454	137.5380	-30.07380	4	1	1	Tirari-Sturt stony desert	176	0.03569951	0.02491605
206392	137.9696	-32.26107	4	1	1	Flinders-Lofty montane woodlands	404	0.07185610	0.02279203
206393	137.9668	-32.25617	4	2	2	Flinders-Lofty montane woodlands	413	0.07645808	0.02031513
209498	137.9492	-31.61819	4	1	1	Tirari-Sturt stony desert	203	0.04148520	0.02630786
209569	137.9632	-31.70650	4	1	1	Tirari-Sturt stony desert	208	0.04492940	0.03324070
211605	137.6774	-29.76760	4	1	1	Tirari-Sturt stony desert	173	0.03870536	0.02983529
212597	137.9168	-29.44980	4	1	2	Tirari-Sturt stony desert	168	0.03728484	0.03044395
213505	137.7454	-29.17600	4	1	1	Simpson desert	152	0.02882154	0.02294426
213586	137.7635	-29.16975	4	2	2	Simpson desert	152	0.02707394	0.02861177
213778	137.8167	-29.25000	4	1	1	Tirari-Sturt stony desert	154	0.03234052	0.03360970
214161	137.9196	-29.42070	4	1	1	Tirari-Sturt stony desert	167	0.03601952	0.03150935
214202	137.9258	-29.40320	4	1	1	Tirari-Sturt stony desert	167	0.03613603	0.03251821
214209	137.9283	-29.33695	4	1	2	Tirari-Sturt stony desert	160	0.03437736	0.03591342
214213	137.9254	-29.30290	4	1	1	Tirari-Sturt stony desert	158	0.03442869	0.03725352
214247	137.9343	-29.35770	4	1	2	Tirari-Sturt stony desert	161	0.07268831	0.07080571
232712	138.1425	-32.66077	4	2	4	Flinders-Lofty montane woodlands	433	0.06606667	0.01810598
233107	138.2422	-32.71106	4	1	2	Flinders-Lofty montane woodlands	395	0.12675576	0.04384988
233465	138.3276	-32.72333	4	2	2	Flinders-Lofty montane woodlands	358	0.06185994	0.01846647
233479	138.3281	-32.58508	4	4	17	Flinders-Lofty montane woodlands	332	0.11416441	0.02351847
233519	138.3361	-32.58414	4	8	16	Flinders-Lofty montane woodlands	332	0.10883869	0.02276825
233632	137.9713	-32.26198	4	2	2	Flinders-Lofty montane woodlands	393	0.07019464	0.02264591
233633	137.9668	-32.25617	4	2	2	Flinders-Lofty montane woodlands	391	0.07304939	0.02136315
233673	137.9796	-32.25159	4	1	3	Flinders-Lofty montane woodlands	377	0.13422986	0.06265061
⋮	⋮	⋮	⋮	⋮	⋮	⋮	⋮	⋮	⋮
2018446	150.0115	-30.15317	4	1	1	Eastern Australian temperate forests	724	0.14196477	0.04613744
2018499	150.0188	-30.02667	4	1	1	Eastern Australian temperate forests	729	0.15595667	0.04958885
2018595	150.0462	-29.86330	4	1	1	Brigalow tropical savanna	693	0.13914928	0.03738768
2018635	150.0515	-29.86310	4	1	1	Brigalow tropical savanna	696	0.13782500	0.04144760
2018636	150.0491	-29.85970	4	2	2	Brigalow tropical savanna	697	0.12978726	0.03489501
2029261	149.9146	-27.24459	4	1	1	Brigalow tropical savanna	582	0.09071380	0.02793104
2031606	150.1074	-26.99821	4	1	1	Brigalow tropical savanna	618	0.11173388	0.03380123
2031646	150.1138	-27.00157	4	1	1	Brigalow tropical savanna	618	0.10280340	0.03194848
2031647	150.1104	-26.99544	4	2	2	Brigalow tropical savanna	621	0.10349590	0.03461240
2031848	150.1609	-26.98394	4	2	2	Brigalow tropical savanna	626	0.09802996	0.02606758
2033670	149.8105	-25.97655	4	1	3	Brigalow tropical savanna	648	0.45162414	0.12971553
2033709	149.8178	-25.97762	4	1	1	Brigalow tropical savanna	648	0.13634376	0.04158761
2034309	149.9748	-25.98289	4	1	1	Brigalow tropical savanna	664	0.14011470	0.04105017
2035453	149.8586	-25.74524	4	1	1	Brigalow tropical savanna	675	0.15236172	0.04199324
2035454	149.8617	-25.74163	4	1	1	Brigalow tropical savanna	676	0.14873641	0.04344147
2035494	149.8776	-25.73969	4	1	1	Brigalow tropical savanna	678	0.14199231	0.04097893
2035495	149.8747	-25.72923	4	1	1	Brigalow tropical savanna	675	0.13976263	0.03960572
2035535	149.8777	-25.73223	4	1	1	Brigalow tropical savanna	675	0.13709288	0.03862375
2035687	149.9262	-25.80474	4	1	1	Brigalow tropical savanna	672	0.16049945	0.04424812
2035762	149.9411	-25.85920	4	1	1	Brigalow tropical savanna	666	0.13608748	0.03773236
2035802	149.9537	-25.85789	4	2	2	Brigalow tropical savanna	668	0.12680566	0.03663616
2047612	150.5000	-30.88967	4	1	1	Eastern Australian temperate forests	648	0.10582088	0.04111735
2048088	150.2170	-30.52733	4	1	1	Brigalow tropical savanna	625	0.09833836	0.03240250
2048090	150.2208	-30.51100	4	1	2	Brigalow tropical savanna	626	0.10713665	0.03559885
2048131	150.2265	-30.50142	4	1	2	Brigalow tropical savanna	634	0.08956050	0.03326204
2048173	150.2348	-30.48550	4	1	1	Brigalow tropical savanna	652	0.10122099	0.04396403
2051273	150.2108	-29.49383	4	1	1	Brigalow tropical savanna	657	0.17314670	0.07494596
2051274	150.2065	-29.48567	4	2	2	Brigalow tropical savanna	656	0.15274771	0.04480011
2068269	150.8516	-32.29570	4	1	1	Eastern Australian temperate forests	637	0.16331407	0.04882702
2092645	151.3450	-30.55830	4	1	1	Eastern Australian temperate forests	738	0.12296158	0.02618895

In [9]:

p1 <- outbreak_model_results |>
  filter(.smooth == "s(nitrogen)") |>
  ggplot(aes(x=nitrogen)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) +
    theme_pubr() +
    xlab("soil nitrogen (%)") +
    ylab("partial effect")

p2 <- outbreak_model_results |>
  filter(.smooth == "s(nymph_density_total_count)") |>
  ggplot(aes(x=nymph_density_total_count)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) + 
    theme_pubr() +
    xlab("total number of observations") +
    ylab("partial effect")

aus <- ne_states(country = 'Australia')

map_dat <- outbreak_model_results |>
    drop_na(longitude,latitude,.estimate) |>
    st_as_sf(coords = c("longitude", "latitude"),crs= "+proj=longlat +datum=WGS84 +ellps=WGS84 +towgs84=0,0,0")

p3 <- aus |>
    ggplot() +
        geom_sf() +
        geom_sf(data=map_dat,aes(color=.estimate)) +
        scale_color_viridis() +
        theme_void()  +
        labs(color="partial effect")

p4 <- outbreak_model_results |>
  filter(.smooth == "s(phosphorus)") |>
  ggplot(aes(x=phosphorus)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) + 
    theme_pubr() +
    xlab("total number of observations") +
    ylab("partial effect")

p5 <- outbreak_model_results |>
    drop_na(ecoregion) |>
    ggplot(aes(y=.estimate, x=reorder(ecoregion,.estimate))) +
        geom_point() +
        geom_errorbar(aes(ymin = .estimate - .se, ymax = .estimate + .se),width=0) +
        theme_pubr() +
        ylab('partial effect') +
        xlab('ecoregion') +
        theme(axis.text.x=element_blank(),
            axis.ticks.x=element_blank())


layout <- '
AB
CD
EE
'

outbreak_all_model_variables <- p1 + p2 + p4 + p5 + p3 +
    plot_layout(design = layout) +
    plot_annotation(tag_levels = 'a')

outbreak_all_model_variables

In [403]:

ggsave(outbreak_all_model_variables,
       file=here('output/publication_figures/spatial_modeling_outbreak_all_model_variables.png'),
       width=10,height=15)

Other variable visualization – nil observations

In [388]:

nil_model_results <- read_csv(here("output/spatial_modeling/nil_model_smooth_estimates.csv"),show_col_types = FALSE)

In [389]:

p1 <- nil_model_results |>
  filter(.smooth == "s(nitrogen)") |>
  ggplot(aes(x=nitrogen)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) + 
    theme_pubr() +
    xlab("soil nitrogen (%)") +
    ylab("partial effect")

p2 <- nil_model_results |>
  filter(.smooth == "s(nymph_density_total_count)") |>
  ggplot(aes(x=nymph_density_total_count)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) + 
    theme_pubr() +
    xlab("total number of observations") +
    ylab("partial effect")

aus <- ne_states(country = 'Australia')

map_dat <- nil_model_results |>
    drop_na(longitude,latitude,.estimate) |>
    st_as_sf(coords = c("longitude", "latitude"),crs= "+proj=longlat +datum=WGS84 +ellps=WGS84 +towgs84=0,0,0")

p3 <- aus |>
    ggplot() +
        geom_sf() +
        geom_sf(data=map_dat,aes(color=.estimate)) +
        scale_color_viridis() +
        theme_void() +
        labs(color="partial effect")

p4 <- nil_model_results |>
  filter(.smooth == "s(phosphorus)") |>
  ggplot(aes(x=phosphorus)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se),alpha=.2) +
    geom_line(aes(y = .estimate),size=1) + 
    theme_pubr() +
    xlab("total number of observations") +
    ylab("partial effect")

p5 <- nil_model_results |>
    drop_na(ecoregion) |>
    ggplot(aes(y=.estimate, x=reorder(ecoregion,.estimate))) +
        geom_point() +
        geom_errorbar(aes(ymin = .estimate - .se, ymax = .estimate + .se),width=0) +
        theme_pubr() +
        ylab('partial effect') +
        xlab('ecoregion') +
        theme(axis.text.x=element_blank(),
            axis.ticks.x=element_blank())


layout <- '
AB
CD
EE
'

nil_all_model_variables <- p1 + p2 + p4 + p5 + p3 +
    plot_layout(design = layout) +
    plot_annotation(tag_levels = 'a')

nil_all_model_variables

In [390]:

ggsave(nil_all_model_variables,
       file=here('output/publication_figures/spatial_modeling_nil_all_model_variables.png'),
       width=10,height=15)

mean annual precipitation correlations

In [391]:

map_outbreak <- read_csv(here("output/spatial_modeling/map_outbreak_model_smooth_estimates.csv"),show_col_types = FALSE) |>
    drop_na(bio12) |>
    mutate(model = 'outbreak')

map_nil <- read_csv(here("output/spatial_modeling/map_nill_model_smooth_estimates.csv"),show_col_types = FALSE) |>
    drop_na(bio12) |>
    mutate(model = 'nil')


map_mod_results <- rbind(map_outbreak,map_nil)
map_mod_results |> head()

A tibble: 6 × 11

.smooth	.type	.by	.estimate	.se	bio12	nymph_density_total_count	longitude	latitude	ecoregion	model
<chr>	<chr>	<lgl>	<dbl>	<dbl>	<dbl>	<dbl>	<dbl>	<dbl>	<chr>	<chr>
s(bio12)	TPRS	NA	0.02558828	0.04400760	152.0000	NA	NA	NA	NA	outbreak
s(bio12)	TPRS	NA	0.02484161	0.04361090	159.3030	NA	NA	NA	NA	outbreak
s(bio12)	TPRS	NA	0.02409458	0.04323558	166.6061	NA	NA	NA	NA	outbreak
s(bio12)	TPRS	NA	0.02334638	0.04288135	173.9091	NA	NA	NA	NA	outbreak
s(bio12)	TPRS	NA	0.02259582	0.04254728	181.2121	NA	NA	NA	NA	outbreak
s(bio12)	TPRS	NA	0.02184140	0.04223185	188.5152	NA	NA	NA	NA	outbreak

In [392]:

p1 <- map_mod_results |>
  filter(.smooth == "s(bio12)") |>
  ggplot(aes(x=bio12)) + 
    geom_ribbon(aes(ymin=.estimate - .se, ymax=.estimate + .se,fill=model),alpha=.2) +
    geom_line(aes(y = .estimate ,color=model),size=1) + 
    theme_pubr() +
    scale_color_manual(values = c('dark grey','red'))  +
    scale_fill_manual(values = c('dark grey','red')) +
    xlab("mean annual precipitation (mm)") +
    ylab("partial effect")


p1

In [393]:

ggsave(p1,
       file=here('output/publication_figures/spatial_modeling_locust_outbreak_with_map.png'),
       width=5,height=5)

Section 2 - environmental correlations

This is just a randomly sampled 100k points between the soil and bioclim variables on google earth engine. This extraction code can be found here: 04_environmental_correlations_map_nitrogen_phosphorus_woody_cover.ipynb

Specifically these correlations:

• soil nitrogen x soil phosphorus
• soil nitrogen x woody veg
• soil nitrogen x MAP
• soil phosphorus x woody veg
• MAP x woody veg

In [35]:

# I min-max normalize to get all variables into the same scale for plotting.

minmax <- function(x, na.rm = TRUE) {
    return((x- min(x)) /(max(x)-min(x)))
}

env_dat <- read_csv(here('data/processed/spatial_modeling/environmental_correlation_data.csv'),show_col_types = FALSE) |>
    drop_na() |>
    mutate(mean_nto = minmax((NTO_000_005_EV + NTO_005_015_EV) / 2),
           mean_pto = minmax((PTO_000_005_EV + PTO_005_015_EV) / 2),
           annual_precip = minmax(bio12),
           tree_cover = minmax(tree_canopy_cover)) |>
    select(mean_pto,mean_nto,annual_precip,tree_cover)

env_dat |> head()

A tibble: 6 × 4

mean_pto	mean_nto	annual_precip	tree_cover
<dbl>	<dbl>	<dbl>	<dbl>
0.04273219	0.02194335	0.025369979	0.00000000
0.04985051	0.01683786	0.009513742	0.00000000
0.06395502	0.05476617	0.243921776	0.13455657
0.09088356	0.15876259	0.191067653	0.06116208
0.07643368	0.03755396	0.042811839	0.03363914
0.10154868	0.08073041	0.100422833	0.05504587

In [30]:

nto_pto_graph <- env_dat |>
    #slice_sample(n=10000) |>
    ggplot(aes(x=mean_nto,y=mean_pto)) +
        geom_abline(slope=1,linetype=3,linewidth=1.4) +
        geom_point(pch=21,alpha=0.3) +
        geom_smooth(method='gam',se=FALSE,linewidth=1.4) +
        xlim(0,1) +
        ylim(0,1) +
        theme_pubr() +
        xlab('soil nitrogen') +
        ylab('soil phosphorus')

nto_woody_graph <- env_dat |>
    #slice_sample(n=10000) |>
    ggplot(aes(x=mean_nto,y=tree_cover)) +
        geom_abline(slope=1,linetype=3,linewidth=1.4) +
        geom_point(pch=21,alpha=0.3) +
        geom_smooth(method='gam',se=FALSE,linewidth=1.4) +
        xlim(0,1) +
        ylim(0,1) +
        theme_pubr() +
        xlab('soil nitrogen') +
        ylab('woody tree cover')

nto_map_graph <- env_dat |>
    #slice_sample(n=10000) |>
    ggplot(aes(x=mean_nto,y=annual_precip)) +
        geom_abline(slope=1,linetype=3,linewidth=1.4) +
        geom_point(pch=21,alpha=0.3) +
        geom_smooth(method='gam',se=FALSE,linewidth=1.4) +
        xlim(0,1) +
        ylim(0,1) +
        theme_pubr() +
        xlab('soil nitrogen') +
        ylab('annual precipitation')

pto_woody_graph <- env_dat |>
    #lice_sample(n=10000) |>
    ggplot(aes(x=mean_pto,y=tree_cover)) +
        geom_abline(slope=1,linetype=3,linewidth=1.4) +
        geom_point(pch=21,alpha=0.3) +
        geom_smooth(method='gam',se=FALSE,linewidth=1.4) +
        xlim(0,1) +
        ylim(0,1) +
        theme_pubr() +
        xlab('soil phosphorus') +
        ylab('woody tree cover')

pto_map_graph <- env_dat |>
    #slice_sample(n=10000) |>
    ggplot(aes(x=mean_pto,y=annual_precip)) +
        geom_abline(slope=1,linetype=3,linewidth=1.4) +
        geom_point(pch=21,alpha=0.3) +
        geom_smooth(method='gam',se=FALSE,linewidth=1.4) +
        xlim(0,1) +
        ylim(0,1) +
        theme_pubr() +
        xlab('soil phosphorus') +
        ylab('annual precipitation')
        

In [137]:

layout <- "
AB
CD
E#
"
env_correlation_graph <- nto_pto_graph + nto_woody_graph + nto_map_graph + pto_woody_graph + pto_map_graph +
  plot_layout(design = layout) + plot_annotation(tag_levels = 'a') 

In [138]:

ggsave(env_correlation_graph,file=here('output/publication_figures/spatial_modeling_environment_correlation_figure.png'),width=10,height=15)

`geom_smooth()` using formula = 'y ~ s(x, bs = "cs")'
`geom_smooth()` using formula = 'y ~ s(x, bs = "cs")'
Warning message:
“Removed 18 rows containing missing values or values outside the scale range
(`geom_smooth()`).”
`geom_smooth()` using formula = 'y ~ s(x, bs = "cs")'
`geom_smooth()` using formula = 'y ~ s(x, bs = "cs")'
Warning message:
“Removed 10 rows containing missing values or values outside the scale range
(`geom_smooth()`).”
`geom_smooth()` using formula = 'y ~ s(x, bs = "cs")'

Section 3 - soil and point map generation

This figure will combine a few figures: - raw point distribution through australia - soil nitrogen map clipped to the locust distribution - soil phosphorus map clipped to the locust distribution

In [11]:

aus <- ne_states(country='Australia') |> 
    select(name,geometry)

point_dat <- read_csv(here('data/raw/survey_data/CT.csv'),show_col_types = FALSE) |>
    select(!`...1`) |>
    select(Latitude,Longitude,Species) |>
    st_as_sf(coords = c("Longitude", "Latitude"),
             crs= "+proj=longlat +datum=WGS84 +ellps=WGS84 +towgs84=0,0,0")

nto_rast <- rast(here("data/raw/survey_data/apl_nitrogen_raster.tif"))
pto_rast <- rast(here("data/raw/survey_data/apl_phosphorus_raster.tif"))

New names:
• `` -> `...1`

Warning message:
/Users/lawton/SideProjects/herbivore_nutrient_interactions/data/raw/survey_data/apl_nitrogen_raster.tif: No such file or directory (GDAL error 4) 

Error:

! [rast] file does not exist: /Users/lawton/SideProjects/herbivore_nutrient_interactions/data/raw/survey_data/apl_nitrogen_raster.tif

    ▆

 1. ├─terra::rast(here("data/raw/survey_data/apl_nitrogen_raster.tif"))

 2. └─terra::rast(here("data/raw/survey_data/apl_nitrogen_raster.tif"))

 3.   └─terra (local) .local(x, ...)

 4.     └─terra:::messages(r, "rast")

 5.       └─terra:::error(f, x@pntr$getError())

In [58]:

nto_rast

class       : SpatRaster 
dimensions  : 1139, 2062, 1  (nrow, ncol, nlyr)
resolution  : 0.01796631, 0.01796631  (x, y)
extent      : 114.6789, 151.7255, -37.76517, -17.30155  (xmin, xmax, ymin, ymax)
coord. ref. : lon/lat WGS 84 (EPSG:4326) 
source      : apl_nitrogen_raster.tif 
name        : apl_nitrogen_raster 

In [191]:

point_map <- ggplot(aus) +
    geom_sf() +
    geom_sf(data=point_dat,size = 0.25) +
    theme_void() # + theme(legend.position="none")

nto_map <- ggplot(aus) +
    geom_sf(color=NA) +
    geom_spatraster(data = nto_rast, aes(fill = apl_nitrogen_raster))  +
    scale_fill_stepsn(n.breaks = 10,
                      colours = rev(terrain.colors(5)),
                      na.value = "transparent",
                      trans='log',
                      name="soil nitrogen \n(log-scaled)") +
    geom_sf(data = aus,fill=NA) +
    theme_void()  #+ theme(legend.position="none")

pto_map <-ggplot(aus) +
    geom_sf(color=NA) +
    geom_spatraster(data = pto_rast, aes(fill = apl_phosphorus_raster))  +
    scale_fill_stepsn(breaks= c(0.14,0.10,0.05,0.04,0.02,0.01),
                      colours = viridis::viridis(9),
                      na.value = "transparent",
                      trans='log',
                      name="soil phosphorus \n(log-scaled)") +
    geom_sf(data = aus,fill=NA) +
    theme_void()  #+ theme(legend.position="none")

<SpatRaster> resampled to 500752 cells.
<SpatRaster> resampled to 500752 cells.

In [271]:

layout2 <- "
AAAA
AAAA
AAAA
AAAA
BBCC
BBCC
BBCC
BBCC
"
layout <- "
A#
BC
"

locust_env_maps <- point_map + nto_map + pto_map + 
    plot_annotation(tag_levels = 'a') +
    plot_layout(design = layout)

locust_env_maps

In [272]:

asp_ratio <- tmaptools::get_asp_ratio(aus)

ggsave(locust_env_maps,
       file=here('output/publication_figures/spatial_modeling_locust_env_map.png'),
       width=10*asp_ratio,height=10)

Section 4 - griding example

I want to show an example gridding of the apl points

In [8]:

apl_distribution = st_read(here("data/raw/survey_data/australian_plague_locut_distribution/Australia_Locust_Distribution.shp"))
apl_distribution

Error:

! Cannot open "/Users/lawton/SideProjects/herbivore_nutrient_interactions/data/raw/survey_data/australian_plague_locut_distribution/Australia_Locust_Distribution.shp"; The file doesn't seem to exist.

    ▆

 1. ├─sf::st_read(here("data/raw/survey_data/australian_plague_locut_distribution/Australia_Locust_Distribution.shp"))

 2. └─sf:::st_read.character(here("data/raw/survey_data/australian_plague_locut_distribution/Australia_Locust_Distribution.shp"))

 3.   └─sf:::CPL_read_ogr(...)

In [27]:

# Creating a grid with cells 4000m x 4000m 
grid = st_make_grid(point_dat, cellsize = 1, 
                            what ="polygons", square = T)

overall_grid_map <- ggplot(aus) +
    geom_sf() +
    geom_sf(data=point_dat,size=0.5,alpha=0.6,pch=21) +
    geom_sf(data=grid,fill=NA,color='red') +
    theme_void()  +
  theme(
    plot.background = element_rect(fill = "white", color = NA)  # Set white background
  )

In [13]:

grid

Geometry set for 440 features 
Geometry type: POLYGON
Dimension:     XY
Bounding box:  xmin: 131.6556 ymin: -37.71413 xmax: 151.6556 ymax: -15.71413
Geodetic CRS:  +proj=longlat +datum=WGS84 +ellps=WGS84 +towgs84=0,0,0
First 5 geometries:
POLYGON ((131.6556 -37.71413, 132.6556 -37.7141...
POLYGON ((132.6556 -37.71413, 133.6556 -37.7141...
POLYGON ((133.6556 -37.71413, 134.6556 -37.7141...
POLYGON ((134.6556 -37.71413, 135.6556 -37.7141...
POLYGON ((135.6556 -37.71413, 136.6556 -37.7141...

In [14]:

nsw <- aus |> filter(name == 'New South Wales')

In [15]:

zoomed_plot <- ggplot(aus) +
    geom_sf() +
    geom_sf(data=point_dat) +
    geom_sf(data=grid,fill=NA,color='red',linewidth=2) +
    coord_sf(ylim = c(-30, -35), xlim = c(140, 146)) +
    theme_void()

zoomed_plot

In [28]:

overall_grid_map <- overall_grid_map  +
  geom_rect(aes(xmin = 140, xmax = 146, ymin = -35, ymax = -30), color = "white", fill = NA)

In [29]:

grid_examples <- zoomed_plot + overall_grid_map
grid_examples

Warning message:
In geom_rect(aes(xmin = 140, xmax = 146, ymin = -35, ymax = -30),  :
  All aesthetics have length 1, but the data has 11 rows.
ℹ Please consider using `annotate()` or provide this layer with data containing a single row.

In [30]:

asp_ratio <- tmaptools::get_asp_ratio(aus)

ggsave(grid_examples,
       file=here('output/publication_figures/spatial_modeling_grid_example_map.png'),
       width=10*asp_ratio,height=5)

Warning message:
In geom_rect(aes(xmin = 140, xmax = 146, ymin = -35, ymax = -30),  :
  All aesthetics have length 1, but the data has 11 rows.
ℹ Please consider using `annotate()` or provide this layer with data containing a single row.

Section 5 - table construction

In [380]:

outbreak_mod <- readRDS(here("output/spatial_modeling/model_objects/locust_outbreak_model.rds")) |>
    tidy() |>
    mutate(model = 'outbreak')

nil_mod <- readRDS(here("output/spatial_modeling/model_objects/locust_nil_model.rds")) |>
    tidy()  |>
    mutate(model = 'nil')

map_outbreak_mod <- readRDS(here("output/spatial_modeling/model_objects/locust_outbreak_map_model.rds"))|>
    tidy()  |>
    mutate(model = 'outbreak')

map_nil_outbreak_mod <- readRDS(here("output/spatial_modeling/model_objects/locust_nil_map_model.rds"))|>
    tidy()  |>
    mutate(model = 'nil')


overall_mods <-outbreak_mod |> rbind(nil_mod)

map_mods <-map_outbreak_mod |> rbind(map_nil_outbreak_mod)

In [381]:

write.csv(overall_mods, here("output/spatial_modeling/map_outbreak_model_results.csv"),row.names=FALSE)