How to install package in R

[HangweiXi]

Hi, I'm wondering how to install the BITE package in R? I've tried "install.packages("BITE")" but it can't find the package.

Cheers, Hangwei

[capemaster]

Hi, the package can be installed from source, please follow the instruction on the main page. Cheers

[kcairns]

I am also having issues with installing BITE because of the GENabel dependancy. GENabel won't install, despite using the code devtools::install_url("https://cran.r-project.org/src/contrib/Archive/GenABEL/GenABEL_1.8-0.tar.gz")

I get the following error:

clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include  -DCOMPILE_WITH_R -fPIC  -Wall -g -O2  -c export_plink.cpp -o export_plink.o
export_plink.cpp:116:39: warning: array subscript is of type 'char' [-Wchar-subscripts]
            fileWoA << " " << Genotype[gtMatrix[i][csnp]];
                                      ^~~~~~~~~~~~~~~~~~
1 warning generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c fexact.c -o fexact.o
fexact.c:1025:6: error: use of undeclared identifier 'PROBLEM'
            PROBLEM "Bug in FEXACT: gave negative key" RECOVER(NULL_ENTRY);
            ^
fexact.c:1806:5: error: use of undeclared identifier 'PROBLEM'
    PROBLEM "FEXACT error %d.\n%s", icode, mes RECOVER(NULL_ENTRY);
    ^
2 errors generated.
make: *** [fexact.o] Error 1
ERROR: compilation failed for package ‘GenABEL’
* removing ‘/Users/kyliecairns/Library/R/x86_64/4.2/library/GenABEL’
Warning message:
In i.p(...) :
  installation of package ‘/var/folders/y7/rpt5qcnj4ggf_dxzfd_646z80000gn/T//RtmpAabixH/filebd3d1ba0b70/GenABEL_1.8-0.tar.gz’ had non-zero exit status

[HangweiXi]

Downgrade R version to 4.1.2 might help

[capemaster]

Hi we are aware of problem of installation with old packages. BITE is going to be extensively rewritten to avoid dependencies as much as possible. In the meantime please use a previous R version that may help.