Question: Can not install deSolve
gravatar for geparada88
15 months ago by
geparada8810 wrote:


I updated R, and now I can not install deSolve. I am getting a compilation error:

trying URL ''
Content type 'application/x-gzip' length 2341489 bytes (2.2 MB)
downloaded 2.2 MB

* installing *source* package ‘deSolve’ ...
** package ‘deSolve’ successfully unpacked and MD5 sums checked
** libs
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c DLLutil.c -o DLLutil.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c R_init_deSolve.c -o R_init_deSolve.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c brent.c -o brent.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_daspk.c -o call_daspk.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_euler.c -o call_euler.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_iteration.c -o call_iteration.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_lsoda.c -o call_lsoda.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_radau.c -o call_radau.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_rk4.c -o call_rk4.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_rkAuto.c -o call_rkAuto.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_rkFixed.c -o call_rkFixed.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_rkImplicit.c -o call_rkImplicit.o
clang -I/Users/gp7/miniconda2/lib/R/include -DNDEBUG  -I/Users/gp7/miniconda2/include    -fPIC  -I/Users/gp7/miniconda2/include  -c call_zvode.c -o call_zvode.o
gfortran   -fPIC  -I/Users/gp7/miniconda2/include -L/Users/gp7/miniconda2/lib  -c daux.f -o daux.o
make: gfortran: No such file or directory
make: *** [daux.o] Error 1
ERROR: compilation failed for package ‘deSolve’
* removing ‘/Users/gp7/miniconda2/lib/R/library/deSolve’
Warning in install.packages :
  installation of package ‘deSolve’ had non-zero exit status

The downloaded source packages are in
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done

This is my R setup:


R.Version ()
[1] "x86_64-apple-darwin11.4.2"

[1] "x86_64"

[1] "darwin11.4.2"

[1] "x86_64, darwin11.4.2"

[1] ""

[1] "3"

[1] "3.2"

[1] "2016"

[1] "10"

[1] "31"

$`svn rev`
[1] "71607"

[1] "R"

[1] "R version 3.3.2 (2016-10-31)"

[1] "Sincere Pumpkin Patch"



Any help will be really appreciated!


ADD COMMENTlink modified 15 months ago by Martin Morgan ♦♦ 21k • written 15 months ago by geparada8810
gravatar for Martin Morgan
15 months ago by
Martin Morgan ♦♦ 21k
United States
Martin Morgan ♦♦ 21k wrote:

Not a Bioconductor package so not strictly relevant here, but you need to install a gfortran compiler following instructions to install 'mandatory tools' and in the and MacOS FAQ.

ADD COMMENTlink written 15 months ago by Martin Morgan ♦♦ 21k

Thank you Martin,
I realised this after posting the question. I'll be more careful next time.

ADD REPLYlink written 15 months ago by geparada8810
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