[gmx-users] Gromacs 2018.3 install warning

[Paul bauer]

Hello,

we have not yet full support for gcc-8, but this is being worked on. You 
can disregard those warnings safely for now.

/Paul

On 29/08/2018 14:01, Du, Yu wrote:
> Dear gmx-users,
>
>
>
>
> I was installing gromacs-2018.3 with gcc8.1, `make -j 24` gave the following warning:
>
>
> `make check` with regression test set 100% passed. Hope next version will fix these warnings.
>
>
> ##################################Warnings##################################################
> [ 33%] Building CXX object src/gromacs/CMakeFiles/libgromacs.dir/gmxpreprocess/pdb2top.cpp.o
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_tune_pme.cpp: In function ‘void make_benchmark_tprs(const char*, char**, gmx_int64_t, gmx_int64_t, real, real, real, int*, t_inputinfo*, FILE*)’:
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_tune_pme.cpp:1080:21: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=]
>           std::strncpy(fn_bench_tprs[j], fn_sim_tpr, std::strlen(fn_sim_tpr)-std::strlen(".tpr"));
>           ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_tune_pme.cpp:1080:63: note: length computed here
>           std::strncpy(fn_bench_tprs[j], fn_sim_tpr, std::strlen(fn_sim_tpr)-std::strlen(".tpr"));
>                                                      ~~~~~~~~~~~^~~~~~~~~~~~
> [ 33%] Building CXX object src/gromacs/CMakeFiles/libgromacs.dir/gmxpreprocess/pgutil.cpp.o
>
>
> [ 35%] Building CXX object src/gromacs/CMakeFiles/libgromacs.dir/analysisdata/datamodule.cpp.o
> In function ‘void calc_cumulatives(t_UmbrellaWindow*, int, t_UmbrellaOptions*, const char*, const char*)’,
>      inlined from ‘void do_bootstrapping(const char*, const char*, const char*, const char*, char*, double*, t_UmbrellaWindow*, int, t_UmbrellaOptions*)’ at /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1689:29:
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1274:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=]
>           sprintf(fn, "%s_cumul.xvg", std::strncpy(buf, fnhist, std::strlen(fnhist)-4));
>           ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp: In function ‘void do_bootstrapping(const char*, const char*, const char*, const char*, char*, double*, t_UmbrellaWindow*, int, t_UmbrellaOptions*)’:
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1274:74: note: length computed here
>           sprintf(fn, "%s_cumul.xvg", std::strncpy(buf, fnhist, std::strlen(fnhist)-4));
>                                                                 ~~~~~~~~~~~^~~~~~~~
> In function ‘void print_histograms(const char*, t_UmbrellaWindow*, int, int, t_UmbrellaOptions*, const char*)’,
>      inlined from ‘void do_bootstrapping(const char*, const char*, const char*, const char*, char*, double*, t_UmbrellaWindow*, int, t_UmbrellaOptions*)’ at /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1735:29:
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1516:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=]
>           sprintf(fn, "%s_bs%d.xvg", std::strncpy(buf, fnhist, std::strlen(fnhist)-4), bs_index);
>           ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp: In function ‘void do_bootstrapping(const char*, const char*, const char*, const char*, char*, double*, t_UmbrellaWindow*, int, t_UmbrellaOptions*)’:
> /share/home/para008/software_new/src/gromacs-2018.3/src/gromacs/gmxana/gmx_wham.cpp:1516:73: note: length computed here
>           sprintf(fn, "%s_bs%d.xvg", std::strncpy(buf, fnhist, std::strlen(fnhist)-4), bs_index);
>                                                                ~~~~~~~~~~~^~~~~~~~
> [ 35%] Building CXX object src/gromacs/CMakeFiles/libgromacs.dir/analysisdata/datamodulemanager.cpp.o
> ##################################Warnings##################################################
>
>
>
> --
> Du, Yu
> PhD Student,
> Shanghai Institute of Organic Chemistry
> 345 Ling Ling Rd., Shanghai, China.
> Zip: 200032, Tel: (86) 021 5492 5275