Failure to install the mandeR
heatheranndye opened this issue · comments
install_github('r-barnes/mandeR', vignette=TRUE)
Downloading GitHub repo r-barnes/mandeR@master
from URL https://api.github.com/repos/r-barnes/mandeR/zipball/master
Installing mandeR
Installing 1 package: Rcpp
Installing package into ‘C:/Users/Heather/Documents/R/win-library/3.4’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/Rcpp_0.12.13.zip'
Content type 'application/zip' length 4354267 bytes (4.2 MB)
downloaded 4.2 MB
package ‘Rcpp’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Heather\AppData\Local\Temp\RtmpkXuw3n\downloaded_packages
Installing 1 package: sf
Installing package into ‘C:/Users/Heather/Documents/R/win-library/3.4’
(as ‘lib’ is unspecified)
also installing the dependencies ‘udunits2’, ‘DBI’, ‘units’, ‘magrittr’
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/udunits2_0.13.zip'
Content type 'application/zip' length 277648 bytes (271 KB)
downloaded 271 KB
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/DBI_0.7.zip'
Content type 'application/zip' length 748921 bytes (731 KB)
downloaded 731 KB
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/units_0.4-6.zip'
Content type 'application/zip' length 806752 bytes (787 KB)
downloaded 787 KB
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/magrittr_1.5.zip'
Content type 'application/zip' length 155741 bytes (152 KB)
downloaded 152 KB
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/sf_0.5-4.zip'
Content type 'application/zip' length 33154989 bytes (31.6 MB)
downloaded 31.6 MB
package ‘udunits2’ successfully unpacked and MD5 sums checked
package ‘DBI’ successfully unpacked and MD5 sums checked
package ‘units’ successfully unpacked and MD5 sums checked
package ‘magrittr’ successfully unpacked and MD5 sums checked
package ‘sf’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Heather\AppData\Local\Temp\RtmpkXuw3n\downloaded_packages
"C:/PROGRA1/R/R-341.2/bin/x64/R" --no-site-file --no-environ --no-save --no-restore --quiet CMD INSTALL
"C:/Users/Heather/AppData/Local/Temp/RtmpkXuw3n/devtools241856796cd3/r-barnes-mandeR-a0c7496"
--library="C:/Users/Heather/Documents/R/win-library/3.4" --install-tests
- installing source package 'mandeR' ...
** libs
*** arch - i386
C:/RBuildTools/3.4/mingw_32/bin/g++ -std=gnu++11 -c -O2 -Wall -mtune=core2 -I"C:/PROGRA1/R/R-341.2/include" -DNDEBUG -DDOCTEST_CONFIG_DISABLE -I"C:/Users/Heather/Documents/R/win-library/3.4/Rcpp/include" -I"d:/Compiler/gcc-4.9.3/local330/include" -DDOCTEST_CONFIG_DISABLE Rwrapper.cpp -o Rwrapper.o
Rwrapper.cpp:2:45: fatal error: compactnesslib/compactnesslib.hpp: No such file or directory
#include "compactnesslib/compactnesslib.hpp"
^
compilation terminated.
make: *** [Rwrapper.o] Error 1
Warning: running command 'make -f "Makevars.win" -f "C:/PROGRA1/R/R-341.2/etc/i386/Makeconf" -f "C:/PROGRA1/R/R-341.2/share/make/winshlib.mk" CXX='$(CXX11)
ERROR: compilation failed for package 'mandeR'
- removing 'C:/Users/Heather/Documents/R/win-library/3.4/mandeR'
Installation failed: Command failed (1)
Warning message:
GitHub repo contains submodules, may not function as expected!
I had this same issue, and @mahrud helped me fix it.
In terminal:
git clone https://github.com/gerrymandr/mandeR.git
cd mandeR
git submodule init
git submodule update
cd ..
tar czf mandeR.tar.gz mandeR
Then in R:
wd="" ## change to where you have mandeR.tar.gz
setwd(wd)
install.packages("mander.tar.gz", repos = NULL, type = "source")
Documented in #2.
This was probably due to an out-of-date compactnesslib.
I've now modified things to take the newest version. Unfortunately, this has introduced a Boost dependency. I haven't tried installing on other machines, yet.