Hi Christoph,
Here is the output:
---------------------------------------------------------------------------------------------------------------------------------------------------------------------
Determining if the pthread_create exist failed with the following output:
Change Dir: /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/gmake" "cmTryCompileExec510651724/fast"
/usr/bin/gmake -f CMakeFiles/cmTryCompileExec510651724.dir/build.make
CMakeFiles/cmTryCompileExec510651724.dir/build
gmake[1]: Entering directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_progress_report
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CMakeFiles 1
Building C object
CMakeFiles/cmTryCompileExec510651724.dir/CheckSymbolExists.c.o
/usr/bin/cc -o
CMakeFiles/cmTryCompileExec510651724.dir/CheckSymbolExists.c.o -c
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CheckSymbolExists.c
Linking C executable cmTryCompileExec510651724
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/cmTryCompileExec510651724.dir/link.txt --verbose=1
/usr/bin/cc
CMakeFiles/cmTryCompileExec510651724.dir/CheckSymbolExists.c.o -o
cmTryCompileExec510651724 -rdynamic
CMakeFiles/cmTryCompileExec510651724.dir/CheckSymbolExists.c.o: In function
`main':
CheckSymbolExists.c:(.text+0xc): undefined reference to `pthread_create'
/usr/bin/ld: link errors found, deleting executable
`cmTryCompileExec510651724'
collect2: ld returned 1 exit status
gmake[1]: *** [cmTryCompileExec510651724] Error 1
gmake[1]: Leaving directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
gmake: *** [cmTryCompileExec510651724/fast] Error 2
File
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CheckSymbolExists.c:
/* */
#include <pthread.h>
int main(int argc, char** argv)
{
(void)argv;
#ifndef pthread_create
return ((int*)(&pthread_create))[argc];
#else
(void)argc;
return 0;
#endif
}
Determining if the function pthread_create exists in the pthreads failed
with the following output:
Change Dir: /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/gmake" "cmTryCompileExec2799678089/fast"
/usr/bin/gmake -f CMakeFiles/cmTryCompileExec2799678089.dir/build.make
CMakeFiles/cmTryCompileExec2799678089.dir/build
gmake[1]: Entering directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_progress_report
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CMakeFiles 1
Building C object
CMakeFiles/cmTryCompileExec2799678089.dir/CheckFunctionExists.c.o
/usr/bin/cc -DCHECK_FUNCTION_EXISTS=pthread_create -o
CMakeFiles/cmTryCompileExec2799678089.dir/CheckFunctionExists.c.o -c
/opt/apps/cmake/3.1.0/share/cmake-3.1/Modules/CheckFunctionExists.c
Linking C executable cmTryCompileExec2799678089
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/cmTryCompileExec2799678089.dir/link.txt --verbose=1
/usr/bin/cc -DCHECK_FUNCTION_EXISTS=pthread_create
CMakeFiles/cmTryCompileExec2799678089.dir/CheckFunctionExists.c.o -o
cmTryCompileExec2799678089 -rdynamic -lpthreads
/usr/bin/ld: cannot find -lpthreads
collect2: ld returned 1 exit status
gmake[1]: *** [cmTryCompileExec2799678089] Error 1
gmake[1]: Leaving directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
gmake: *** [cmTryCompileExec2799678089/fast] Error 2
Determining if the function gmx_gpu_sharing_supported exists in the
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
failed with the following output:
Change Dir: /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/gmake" "cmTryCompileExec4208178029/fast"
/usr/bin/gmake -f CMakeFiles/cmTryCompileExec4208178029.dir/build.make
CMakeFiles/cmTryCompileExec4208178029.dir/build
gmake[1]: Entering directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_progress_report
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CMakeFiles 1
Building C object
CMakeFiles/cmTryCompileExec4208178029.dir/CheckFunctionExists.c.o
/usr/bin/cc -DCHECK_FUNCTION_EXISTS=gmx_gpu_sharing_supported -o
CMakeFiles/cmTryCompileExec4208178029.dir/CheckFunctionExists.c.o -c
/opt/apps/cmake/3.1.0/share/cmake-3.1/Modules/CheckFunctionExists.c
Linking C executable cmTryCompileExec4208178029
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/cmTryCompileExec4208178029.dir/link.txt --verbose=1
/usr/bin/cc -DCHECK_FUNCTION_EXISTS=gmx_gpu_sharing_supported
CMakeFiles/cmTryCompileExec4208178029.dir/CheckFunctionExists.c.o -o
cmTryCompileExec4208178029 -rdynamic
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
-Wl,-rpath,/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64
CMakeFiles/cmTryCompileExec4208178029.dir/CheckFunctionExists.c.o: In
function `main':
CheckFunctionExists.c:(.text+0x15): undefined reference to
`gmx_gpu_sharing_supported'
/usr/bin/ld: link errors found, deleting executable
`cmTryCompileExec4208178029'
collect2: ld returned 1 exit status
gmake[1]: *** [cmTryCompileExec4208178029] Error 1
gmake[1]: Leaving directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
gmake: *** [cmTryCompileExec4208178029/fast] Error 2
Determining if the function gmx_is_single_precision exists in the
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
failed with the following output:
Change Dir: /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/gmake" "cmTryCompileExec3948644274/fast"
/usr/bin/gmake -f CMakeFiles/cmTryCompileExec3948644274.dir/build.make
CMakeFiles/cmTryCompileExec3948644274.dir/build
gmake[1]: Entering directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_progress_report
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CMakeFiles 1
Building CXX object
CMakeFiles/cmTryCompileExec3948644274.dir/CheckFunctionExists.cpp.o
/usr/bin/c++ -DCHECK_FUNCTION_EXISTS=gmx_is_single_precision -o
CMakeFiles/cmTryCompileExec3948644274.dir/CheckFunctionExists.cpp.o -c
/home1/03112/bal2488/votca/src/csg/CMakeModules/CheckFunctionExists.cpp
Linking CXX executable cmTryCompileExec3948644274
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/cmTryCompileExec3948644274.dir/link.txt --verbose=1
/usr/bin/c++ -DCHECK_FUNCTION_EXISTS=gmx_is_single_precision
CMakeFiles/cmTryCompileExec3948644274.dir/CheckFunctionExists.cpp.o -o
cmTryCompileExec3948644274 -rdynamic
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
-Wl,-rpath,/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::__detail::_List_node_base::_M_hook(std::__detail::_List_node_base*)@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::__throw_out_of_range_fmt(char const*,
...)@GLIBCXX_3.4.20'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::range_error::~range_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::out_of_range::~out_of_range()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::length_error::~length_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::invalid_argument::~invalid_argument()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::domain_error::~domain_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::underflow_error::~underflow_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::overflow_error::~overflow_error()@GLIBCXX_3.4.15'
/usr/bin/ld: link errors found, deleting executable
`cmTryCompileExec3948644274'
collect2: ld returned 1 exit status
gmake[1]: *** [cmTryCompileExec3948644274] Error 1
gmake[1]: Leaving directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
gmake: *** [cmTryCompileExec3948644274/fast] Error 2
Determining if the function gmx_is_double_precision exists in the
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
failed with the following output:
Change Dir: /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/gmake" "cmTryCompileExec1788432292/fast"
/usr/bin/gmake -f CMakeFiles/cmTryCompileExec1788432292.dir/build.make
CMakeFiles/cmTryCompileExec1788432292.dir/build
gmake[1]: Entering directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_progress_report
/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp/CMakeFiles 1
Building CXX object
CMakeFiles/cmTryCompileExec1788432292.dir/CheckFunctionExists.cpp.o
/usr/bin/c++ -DCHECK_FUNCTION_EXISTS=gmx_is_double_precision -o
CMakeFiles/cmTryCompileExec1788432292.dir/CheckFunctionExists.cpp.o -c
/home1/03112/bal2488/votca/src/csg/CMakeModules/CheckFunctionExists.cpp
Linking CXX executable cmTryCompileExec1788432292
/opt/apps/cmake/3.1.0/bin/cmake -E cmake_link_script
CMakeFiles/cmTryCompileExec1788432292.dir/link.txt --verbose=1
/usr/bin/c++ -DCHECK_FUNCTION_EXISTS=gmx_is_double_precision
CMakeFiles/cmTryCompileExec1788432292.dir/CheckFunctionExists.cpp.o -o
cmTryCompileExec1788432292 -rdynamic
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
-Wl,-rpath,/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64
CMakeFiles/cmTryCompileExec1788432292.dir/CheckFunctionExists.cpp.o: In
function `main':
CheckFunctionExists.cpp:(.text+0x10): undefined reference to
`gmx_is_double_precision()'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::__detail::_List_node_base::_M_hook(std::__detail::_List_node_base*)@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::__throw_out_of_range_fmt(char const*,
...)@GLIBCXX_3.4.20'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::range_error::~range_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::out_of_range::~out_of_range()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::length_error::~length_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::invalid_argument::~invalid_argument()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to `std::domain_error::~domain_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::underflow_error::~underflow_error()@GLIBCXX_3.4.15'
/opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so:
undefined reference to
`std::overflow_error::~overflow_error()@GLIBCXX_3.4.15'
/usr/bin/ld: link errors found, deleting executable
`cmTryCompileExec1788432292'
collect2: ld returned 1 exit status
gmake[1]: *** [cmTryCompileExec1788432292] Error 1
gmake[1]: Leaving directory
`/home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeTmp'
gmake: *** [cmTryCompileExec1788432292/fast] Error 2
----------------------------------------------------------------------------------------------------------------------------------------------------------------------
Thanks a lot!
Best,
Ryan
On Monday, May 23, 2016 at 2:15:59 PM UTC-5, Christoph Junghans wrote:
>
> 2016-05-23 12:05 GMT-06:00 rjadrich2 <[email protected] <javascript:>>:
> > Hello Christoph,
> >
> > Upon trying to install VOTCA I am getting a very strange error message:
> >
> >
> > -- checking for module 'libgromacs_d'
> > -- package 'libgromacs_d' not found
> > -- checking for module 'libgromacs'
> > -- found libgromacs, version 5.0.6
> > -- Looking for GromacsVersion in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> > -- Looking for GromacsVersion in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> -
> > found
> > -- Looking for init_domdec_vsites in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> > -- Looking for init_domdec_vsites in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> -
> > found
> > -- Looking for gmx_gpu_sharing_supported in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> > -- Looking for gmx_gpu_sharing_supported in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> -
> > not found
> > -- Looking for c++ gmx_is_single_precision in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> > -- Looking for c++ gmx_is_single_precision in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> -
> > not found
> > -- Looking for c++ gmx_is_double_precision in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> > -- Looking for c++ gmx_is_double_precision in
> > /opt/apps/intel15/mvapich2_2_1/gromacs/5.0.6/x86_64/lib64/libgromacs.so
> -
> > not found
> > CMake Error at CMakeModules/FindGROMACS.cmake:61 (message):
> > Could not find neither gmx_is_single_precision nor
> gmx_is_double_precision
> > in the gromacs library, that is very very strange, take look at the
> error
> > message in
> /home1/03112/bal2488/votca/src/csg/CMakeFiles/CMakeError.log to
> > find out what was going wrong. This most likely means that your
> gromacs
> > version is too old, we need at least gromacs 5 !
> > Call Stack (most recent call first):
> > CMakeLists.txt:82 (find_package)
> >
> >
> > I am using Gromacs 5.0.6 so the "we need at least gromacs 5" is strange.
> I
> > am also using CMake 3.1.0 to avoid the issue in some earlier versions.
> Do
> > you have any thoughts on this?
> Which version of VOTCA is that?
>
> Can you post your CMakeError.log?
>
> Thanks,
>
> Christoph
> >
> > Thanks so much!
> >
> > Best,
> >
> > Ryan
> >
> > --
> > You received this message because you are subscribed to the Google
> Groups
> > "votca" group.
> > To unsubscribe from this group and stop receiving emails from it, send
> an
> > email to [email protected] <javascript:>.
> > To post to this group, send email to [email protected]
> <javascript:>.
> > Visit this group at https://groups.google.com/group/votca.
> > For more options, visit https://groups.google.com/d/optout.
>
>
>
> --
> Christoph Junghans
> Web: http://www.compphys.de
>
--
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