Installation Fails due to RcppArmadillo

[AtanasiuDemian]

Hi, thanks for developing this. I'm having an issue with installing due to the following error (Windows 10):

> devtools::install_github('immunogenomics/presto', dependencies=FALSE)

Downloading GitHub repo immunogenomics/presto@HEAD
── R CMD build ─────────────────────────────────────────────────────────────────────────────────────────────
✔  checking for file 'C:\Users\ademian\AppData\Local\Temp\Rtmp0OQbcy\remotes5fe438e34570\immunogenomics-presto-31dc97f/DESCRIPTION' (372ms)
─  preparing 'presto': (395ms)
✔  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 'presto_1.0.0.tar.gz'
   
Installing package into ‘C:/Users/ademian/AppData/Local/R/win-library/4.3’
(as ‘lib’ is unspecified)
* installing *source* package 'presto' ...
** using staged installation
** libs
using C++ compiler: 'g++ (GCC) 10.2.0'
using C++11
g++  -std=gnu++11 -I"C:/PROGRA~1/R/R-43~1.3/include" -DNDEBUG  -I'C:/Users/ademian/AppData/Local/R/win-library/4.3/Rcpp/include' -I'C:/Users/ademian/AppData/Local/R/win-library/4.3/RcppArmadillo/include'   -I"c:/rtools43/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
In file included from C:/Users/ademian/AppData/Local/R/win-library/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:27,
                 from C:/Users/ademian/AppData/Local/R/win-library/4.3/RcppArmadillo/include/RcppArmadillo.h:29,
                 from RcppExports.cpp:4:
C:/Users/ademian/AppData/Local/R/win-library/4.3/RcppArmadillo/include/RcppArmadillo/config/RcppArmadilloConfig.h:110:12: fatal error: RcppArmadillo/config/RcppArmadilloConfigGenerated.h: No such file or directory
  110 |   #include <RcppArmadillo/config/RcppArmadilloConfigGenerated.h>
      |            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
compilation terminated.
make: *** [C:/PROGRA~1/R/R-43~1.3/etc/x64/Makeconf:272: RcppExports.o] Error 1
ERROR: compilation failed for package 'presto'
* removing 'C:/Users/ademian/AppData/Local/R/win-library/4.3/presto'
Warning message:
In i.p(...) :
  installation of package ‘C:/Users/ademian/AppData/Local/Temp/RtmpeQsEYJ/file6d0842be5345/presto_1.0.0.tar.gz’ had non-zero exit status

Same error happens when I install with dependencies. Could you please help with this? Below is my session info:

> sessioninfo::session_info()
─ Session info ───────────────────────────────────────────────────────────────────────────────────────────
 setting  value
 version  R version 4.3.3 (2024-02-29 ucrt)
 os       Windows 10 x64 (build 19045)
 system   x86_64, mingw32
 ui       RStudio
 language (EN)
 collate  English_United Kingdom.utf8
 ctype    English_United Kingdom.utf8
 tz       Europe/London
 date     2024-03-11
 rstudio  2023.12.1+402 Ocean Storm (desktop)
 pandoc   NA

─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────
 package              * version    date (UTC) lib source
 abind                  1.4-5      2016-07-21 [1] CRAN (R 4.3.1)
 Biobase              * 2.62.0     2023-10-24 [1] Bioconductor
 BiocGenerics         * 0.48.1     2023-11-01 [1] Bioconductor
 bitops                 1.0-7      2021-04-24 [1] CRAN (R 4.3.1)
 cli                    3.6.2      2023-12-11 [1] CRAN (R 4.3.2)
 crayon                 1.5.2      2022-09-29 [1] CRAN (R 4.3.2)
 DelayedArray           0.28.0     2023-10-24 [1] Bioconductor
 GenomeInfoDb         * 1.38.5     2023-12-28 [1] Bioconductor 3.18 (R 4.3.2)
 GenomeInfoDbData       1.2.11     2024-01-08 [1] Bioconductor
 GenomicRanges        * 1.54.1     2023-10-29 [1] Bioconductor
 IRanges              * 2.36.0     2023-10-24 [1] Bioconductor
 lattice                0.22-5     2023-10-24 [2] CRAN (R 4.3.3)
 Matrix               * 1.6-4      2023-11-30 [1] CRAN (R 4.3.2)
 MatrixGenerics       * 1.14.0     2023-10-24 [1] Bioconductor
 matrixStats          * 1.2.0      2023-12-11 [1] CRAN (R 4.3.2)
 Rcpp                   1.0.12     2024-01-09 [1] CRAN (R 4.3.2)
 RcppArmadillo        * 0.12.8.1.0 2024-03-03 [1] CRAN (R 4.3.3)
 RCurl                  1.98-1.13  2023-11-02 [1] CRAN (R 4.3.2)
 rstudioapi             0.15.0     2023-07-07 [1] CRAN (R 4.3.2)
 S4Arrays               1.2.0      2023-10-24 [1] Bioconductor
 S4Vectors            * 0.40.2     2023-11-23 [1] Bioconductor
 sessioninfo            1.2.2      2021-12-06 [1] CRAN (R 4.3.2)
 SingleCellExperiment * 1.24.0     2023-10-24 [1] Bioconductor
 SparseArray            1.2.3      2023-12-25 [1] Bioconductor 3.18 (R 4.3.2)
 SummarizedExperiment * 1.32.0     2023-10-24 [1] Bioconductor
 XVector                0.42.0     2023-10-24 [1] Bioconductor
 zlibbioc               1.48.0     2023-10-24 [1] Bioconductor

 [1] C:/Users/ademian/AppData/Local/R/win-library/4.3
 [2] C:/Program Files/R/R-4.3.3/library

[slowkow]

In your log I noticed this error:

fatal error: RcppArmadillo/config/RcppArmadilloConfigGenerated.h: No such file or directory

You might want to try the steps below.

1. Close R, start a fresh new R session.
2. Re-install RcppArmadillo with install.packages("RcppArmadillo")
3. Try installing presto with devtools::install_github("immunogenomics/presto")

If that doesn't work, let us know what you see.