[R-pkg-devel] Note: information on .o files is not available / Found '_exit', possibly from '_exit' (C)

SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++11 -pthread -O3 -Wextra -Wall -Wno-unknown-pragmas -Wno-return-type -Wno-ignored-attributes -Wno-cast-function-type -Wno-error=cast-function-type")

SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++11 -pthread -O3 -Wextra -Wall")

       Can you run the checks only on the subdirectory containing the
compiled code?  If yes, then you can run it only on half of that
directory and identify it with a binary search.


       Some years ago, I found a particularly difficult bug that way.
If I recall correctly, I made a copy of the package, deleted half of the
*.Rd files, etc., until I identified which *.Rd file. Then I deleted
~half of the contents of that *.Rd file until I isolated the problem.
It was neither easy nor fun, but it was what I did to find and then fix
the problem.


       Hope this helps,
       Spencer


On 2020-07-17 07:34, Marcin Jurek wrote:

So maybe you tried that already but I noticed that sometimes when I do the
check on the package directory rather than on the tarball I get similar
errors. I don't know if that's the problem but it should be a quick thing
to try.

On Fri, Jul 17, 2020 at 5:05 AM Fabio Sigrist <fabiosigrist at gmail.com>
wrote:

Dear all,

I am trying to get an R package with C++ code on CRAN and I have one NOTE
remaining, for which I can't find a solution:

Note: information on .o files for x64 is not available
   File
'd:/RCompile/CRANincoming/R-devel/lib/gpboost/libs/x64/lib_gpboost.dll':
     Found '_exit', possibly from '_exit' (C)
     Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
     Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
     Found 'printf', possibly from 'printf' (C)

As much as I search through my code, I can't find the place / headers where
these calls / symbols originate. Also, I have no idea how to add
information on .o files (apart from the shared library, there are no .o
files). The .tar.gz file for the package can be found on
https://github.com/fabsig/GPBoost/blob/master/gpboost_0.2.0.tar.gz. Note
that the shared library is compiled using install.libs.R (this is a
deliberate choice) and the flag "GPB_R_BUILD" is set when compiling for the
R package (I have tried to put "#ifndef GPB_R_BUILD" around all headers
that could cause the problems with exit / abort calls, but apparently I
have not been able to find all).

Any help is greatly appreciated.

Best regards,
Fabio Sigrist

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