Hello,
Can you try:
./configure --with-python /usr/bin/python3 gnu
please?
Thanks,
Gerald.
P.S.: with the miniconda installation, when I apply the fix:
/bin/rm $AMBERHOME/miniconda/compiler_compat/ld
ln -s /usr/bin/ld $AMBERHOME/miniconda/compiler_compat/ld
then the problem you have is solved. Are you sure that if you do `ls -l
miniconda/compiler_compat/ld` you get something like
`miniconda/compiler_compat/ld -> /usr/bin/ld`
On 12/13/19 01:44, Albert wrote:
> yes, I applied that before I compiling it. But the problem is still
> there.
>
>
> On 12/13/2019 02:46 AM, Gerald Monard wrote:
>> Hello,
>>
>> Did you applied the solution described at
>> http://ambermd.org/Installation.php for OpenSuse?
>>
>> Gerald.
>>
>> On 12/12/19 01:21, Albert wrote:
>>
>>> Hello,
>>>
>>> I am trying to compile Amber18+AmberTool19 in my opensuse 15.1 x64 OS
>>> with command line:
>>>
>>> ./configure gnu
>>>
>>> but it always failed with the following messages:
>>>
>>> I am using gcc-8
>>>
>>> ----------------------------
>>>
>>> cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid
>>> for
>>> C/ObjC but not for C++
>>> cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid
>>> for
>>> C/ObjC but not for C++
>>> src/readparm.cpp: In function ‘ExitStatus readparm(const string&,
>>> std::vector<std::__cxx11::basic_string<char> >&, ParmDataMap&,
>>> ParmStringMap&, ParmStringMap&, ParmFormatMap&,
>>> std::__cxx11::string&)’:
>>> src/readparm.cpp:143:28: warning: ‘char* strncpy(char*, const char*,
>>> size_t)’ specified bound 8 equals destination size
>>> [-Wstringop-truncation]
>>> strncpy(d.c, word.c_str(), MAX_HOLLERITH_SIZE);
>>> ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>> /soft/amber/18/miniconda/compiler_compat/ld:
>>> /usr/lib64/gcc/x86_64-suse-linux/8/../../../../lib64/crti.o: unable to
>>> initialize decompress status for section .debug_aranges
>>> /soft/amber/18/miniconda/compiler_compat/ld:
>>> /usr/lib64/gcc/x86_64-suse-linux/8/../../../../lib64/crti.o: unable to
>>> initialize decompress status for section .debug_aranges
>>> /soft/amber/18/miniconda/compiler_compat/ld:
>>> /usr/lib64/gcc/x86_64-suse-linux/8/../../../../lib64/crti.o: unable to
>>> initialize decompress status for section .debug_aranges
>>> /soft/amber/18/miniconda/compiler_compat/ld:
>>> /usr/lib64/gcc/x86_64-suse-linux/8/../../../../lib64/crti.o: unable to
>>> initialize decompress status for section .debug_aranges
>>> /usr/lib64/gcc/x86_64-suse-linux/8/../../../../lib64/crti.o: file not
>>> recognized: file format not recognized
>>> collect2: error: ld returned 1 exit status
>>> error: command 'g++' failed with exit status 1
>>> make[2]: *** [Makefile:525: parmed] Error 1
>>> make[2]: Leaving directory '/soft/amber/18/AmberTools/src'
>>> make[1]: *** [Makefile:56: serial] Error 2
>>> make[1]: Leaving directory '/soft/amber/18/AmberTools/src'
>>> make: *** [Makefile:7: install] Error 2
>>> ------------------------------------------------
>>>
>>>
>>> Thank you very much
>>>
>>> Albert
>>>
>>>
>>> _______________________________________________
>>> AMBER mailing list
>>> AMBER.ambermd.org
>>> http://lists.ambermd.org/mailman/listinfo/amber
>
--
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Thu Dec 12 2019 - 23:30:02 PST
