I am using a Rstudio AMI developed by Louis Aslett and try to install R package requires lib boost-dev, the latest version of which is installed and there are Boost libraries installed in /usr/include/boost. However, the package failed to be installed with a following error;
> install_github("velocyto-team/velocyto.R", lib="/home/rstudio/R/x86_64-pc-linux-gnu-library/3.6")Downloading GitHub repo velocyto-team/velocyto.R@masterSkipping 1 packages not available: pcaMethods✓ checking for file ‘/tmp/RtmpqEM2ow/remotes8bb32d2c94c/velocyto-team-velocyto.R-83e6ed9/DESCRIPTION’ ...─ preparing ‘velocyto.R’:✓ checking DESCRIPTION meta-information ...─ cleaning src─ checking for LF line-endings in source and make files and shell scripts─ checking for empty or unneeded directories─ building ‘velocyto.R_0.6.tar.gz’* installing *source* package ‘velocyto.R’ ...** using staged installation** libsg++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I"/home/rstudio/R/x86_64-pc-linux-gnu-library/3.6/Rcpp/include" -I"/usr/local/lib/R/site-library/RcppArmadillo/include" -fopenmp -fpic -g -O2 -fdebug-prefix-map=/build/r-base-VAQCff/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppExports.cpp -o RcppExports.og++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I"/home/rstudio/R/x86_64-pc-linux-gnu-library/3.6/Rcpp/include" -I"/usr/local/lib/R/site-library/RcppArmadillo/include" -fopenmp -fpic -g -O2 -fdebug-prefix-map=/build/r-base-VAQCff/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c points_within.cpp -o points_within.og++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I"/home/rstudio/R/x86_64-pc-linux-gnu-library/3.6/Rcpp/include" -I"/usr/local/lib/R/site-library/RcppArmadillo/include" -fopenmp -fpic -g -O2 -fdebug-prefix-map=/build/r-base-VAQCff/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c routines.cpp -o routines.og++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o velocyto.R.so RcppExports.o points_within.o routines.o -lboost_filesystem -lboost_system -lstdc++ -llapack -lblas -fopenmp -lgfortran -lm -lquadmath -L/usr/lib/R/lib -lR/usr/bin/ld: cannot find -lboost_filesystem/usr/bin/ld: cannot find -lboost_systemcollect2: error: ld returned 1 exit status
I'd appreciate any workaround for this.
> session_info()─ Session info ────────────────────────────────────────────────────────────────────────────────────────────────────────────────── setting value version R version 3.6.0 (2019-04-26) os Ubuntu 18.04.2 LTS system x86_64, linux-gnu ui RStudio language (EN) collate C.UTF-8 ctype C.UTF-8 tz Etc/UTC date 2020-04-03 ─ Packages ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── package * version date lib source assertthat 0.2.1 2019-03-21 [2] CRAN (R 3.6.0) backports 1.1.5 2019-10-02 [2] CRAN (R 3.6.0) BiocManager * 1.30.10 2019-11-16 [1] CRAN (R 3.6.0) callr 3.4.3 2020-03-28 [1] CRAN (R 3.6.0) cli 2.0.2 2020-02-28 [1] CRAN (R 3.6.0) crayon 1.3.4 2017-09-16 [2] CRAN (R 3.6.0) curl 4.3 2019-12-02 [1] CRAN (R 3.6.0) desc 1.2.0 2018-05-01 [2] CRAN (R 3.6.0) devtools * 2.2.2 2020-02-17 [1] CRAN (R 3.6.0) digest 0.6.25 2020-02-23 [1] CRAN (R 3.6.0) ellipsis 0.3.0 2019-09-20 [1] CRAN (R 3.6.0) fansi 0.4.1 2020-01-08 [2] CRAN (R 3.6.0) fs 1.4.0 2020-03-31 [1] CRAN (R 3.6.0) glue 1.3.2 2020-03-12 [2] CRAN (R 3.6.0) magrittr 1.5 2014-11-22 [2] CRAN (R 3.6.0) memoise 1.1.0 2017-04-21 [1] CRAN (R 3.6.0) pkgbuild 1.0.6 2019-10-09 [1] CRAN (R 3.6.0) pkgload 1.0.2 2018-10-29 [1] CRAN (R 3.6.0) prettyunits 1.1.1 2020-01-24 [2] CRAN (R 3.6.0) processx 3.4.2 2020-02-09 [1] CRAN (R 3.6.0) ps 1.3.2 2020-02-13 [2] CRAN (R 3.6.0) R6 2.4.1 2019-11-12 [2] CRAN (R 3.6.0) remotes 2.1.1 2020-02-15 [1] CRAN (R 3.6.0) rlang 0.4.5 2020-03-01 [1] CRAN (R 3.6.0) rprojroot 1.3-2 2018-01-03 [2] CRAN (R 3.6.0) rstudioapi 0.11 2020-02-07 [2] CRAN (R 3.6.0) sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0) testthat 2.3.2 2020-03-02 [1] CRAN (R 3.6.0) usethis * 1.5.1 2019-07-04 [1] CRAN (R 3.6.0) withr 2.1.2 2018-03-15 [2] CRAN (R 3.6.0)[1] /home/rstudio/R/x86_64-pc-linux-gnu-library/3.6[2] /usr/local/lib/R/site-library[3] /usr/lib/R/site-library[4] /usr/lib/R/library