Installation of DECoN failed

[Leelouh]

Hello, I am trying to install DECoN V2 but I have some issues.

It seems it can't install the package ExomeDepth (error message below from the setup.log file).
I tried to install ExomeDepth from github (install_github("vplagnol/ExomeDepth")) but the installation of ExomeDepth also failed.

Does anyone encounter this issue? Is there another way to install ExomeDepth?

Thank you in advance.

[...]
Installing ExomeDepth [1.1.15] ...
        FAILED
Error installing package 'ExomeDepth':
======================================

* installing *source* package 'ExomeDepth' ...
** package 'ExomeDepth' successfully unpacked and MD5 sums checked
** using staged installation
** libs
g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-wSz8CH/r-base-4.2.1=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-str
ong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c CNV_estimate.cpp -o CNV_estimate.o
gcc -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-wSz8CH/r-base-4.2.1=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat 
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c ExomeDepth_init.c -o ExomeDepth_init.o
gcc -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -ffile-prefix-map=/build/r-base-wSz8CH/r-base-4.2.1=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat 
-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2  -c VP_gamma.c -o VP_gamma.o
In file included from gsl_math.h:22,
                 from VP_gamma.c:23:
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:85:1: error: expected ';' before 'extern'
   85 | __MATHCALL_VEC (acosh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:87:1: error: expected ';' before 'extern'
   87 | __MATHCALL_VEC (asinh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:89:1: error: expected ';' before 'extern'
   89 | __MATHCALL_VEC (atanh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:119:1: error: expected ';' before 'extern'
  119 | __MATHCALL_VEC (expm1,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:122:1: error: expected ';' before 'extern'
  122 | __MATHCALL_VEC (log1p,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:147:1: error: expected ';' before 'extern'
  147 | __MATHCALL_VEC (hypot,, (_Mdouble_ __x, _Mdouble_ __y));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:85:1: error: expected ';' before 'extern'
   85 | __MATHCALL_VEC (acosh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:87:1: error: expected ';' before 'extern'
   87 | __MATHCALL_VEC (asinh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:89:1: error: expected ';' before 'extern'
   89 | __MATHCALL_VEC (atanh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:119:1: error: expected ';' before 'extern'
  119 | __MATHCALL_VEC (expm1,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:122:1: error: expected ';' before 'extern'
  122 | __MATHCALL_VEC (log1p,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:147:1: error: expected ';' before 'extern'
  147 | __MATHCALL_VEC (hypot,, (_Mdouble_ __x, _Mdouble_ __y));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:85:1: error: expected ';' before 'extern'
   85 | __MATHCALL_VEC (acosh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:87:1: error: expected ';' before 'extern'
   87 | __MATHCALL_VEC (asinh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:89:1: error: expected ';' before 'extern'
   89 | __MATHCALL_VEC (atanh,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:119:1: error: expected ';' before 'extern'
  119 | __MATHCALL_VEC (expm1,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:122:1: error: expected ';' before 'extern'
  122 | __MATHCALL_VEC (log1p,, (_Mdouble_ __x));
      | ^~~~~~~~~~~~~~
/usr/include/x86_64-linux-gnu/bits/mathcalls.h:147:1: error: expected ';' before 'extern'
  147 | __MATHCALL_VEC (hypot,, (_Mdouble_ __x, _Mdouble_ __y));
      | ^~~~~~~~~~~~~~
make: *** [/usr/lib/R/etc/Makeconf:168: VP_gamma.o] Error 1
ERROR: compilation failed for package 'ExomeDepth'
* removing '/DECoN/Linux/renv/staging/1/ExomeDepth'
Error: install of package 'ExomeDepth' failed [error code 1]
In addition: There were 12 warnings (use warnings() to see them)
Traceback (most recent calls last):
12: renv::restore()
11: renv_restore_run_actions(project, diff, current, lockfile, rebuild)
10: renv_install_impl(records)
 9: renv_install_staged(records)
 8: renv_install_default(records)
 7: handler(package, renv_install_package(record))
 6: renv_install_package(record)
 5: withCallingHandlers(renv_install_package_impl(record), error = function(e) {
        vwritef("\tFAILED")
        writef(e$output)
    })
 4: renv_install_package_impl(record)
 3: r_cmd_install(package, path)
 2: r_exec_error(package, output, "install", status)
 1: stop(error)
Execution halted

[mcollodetti]

try

install.packages('package name',repos='http://cran.us.r-project.org')