Re: NAMD compiling problem

From: Giacomo Fiorin (giacomo.fiorin_at_gmail.com)
Date: Thu Dec 06 2018 - 11:12:27 CST

Sorry, it's actually a thread from about 4 weeks ago.

On Thu, Dec 6, 2018 at 12:11 PM Giacomo Fiorin <giacomo.fiorin_at_gmail.com>
wrote:

> Check the mailing list archive in the last 2 weeks.
>
> On Thu, Dec 6, 2018 at 12:01 PM Faramarz Joodaki <fjoodaki_at_my.uri.edu>
> wrote:
>
>> Hi Everyone!
>> I always install NAMD easily on my computer. But recently when I switched
>> to Ubuntu 18.04, I could not compile it, and I received the blow error
>> during compiling.
>>
>> /usr/bin/ld: .rootdir/fftw/lib/libsrfftw.a(rfftwnd.o): relocation
>> R_X86_64_32 against `.rodata.str1.32' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsrfftw.a(rplanner.o): relocation
>> R_X86_64_32 against symbol `rfftw_config' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsrfftw.a(rexec.o): relocation
>> R_X86_64_32 against `.rodata.str1.32' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(planner.o): relocation
>> R_X86_64_32 against symbol `fftw_config' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(executor.o): relocation
>> R_X86_64_32 against `.rodata.str1.32' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(fftwnd.o): relocation
>> R_X86_64_32 against `.rodata.str1.32' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(malloc.o): relocation
>> R_X86_64_32 against `.rodata.str1.1' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(wisdom.o): relocation
>> R_X86_64_32 against `.rodata.str1.1' can not be used when making a PIE
>> object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(wisdomio.o): relocation
>> R_X86_64_32 against `.text' can not be used when making a PIE object;
>> recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(putils.o): relocation
>> R_X86_64_32S against `.rodata' can not be used when making a PIE object;
>> recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(rader.o): relocation
>> R_X86_64_32 against symbol `fftw_twiddle_rader' can not be used when making
>> a PIE object; recompile with -fPIC
>> /usr/bin/ld: .rootdir/fftw/lib/libsfftw.a(twiddle.o): relocation
>> R_X86_64_32 against `.bss' can not be used when making a PIE object;
>> recompile with -fPIC
>> /usr/bin/ld: final link failed: Nonrepresentable section on output
>> collect2: error: ld returned 1 exit status
>> Fatal Error by charmc in directory
>> /home/faramarz/Software/NAMD/NAMD_2.11_Source/Linux-x86_64-g++
>>
>> I searched a lot about this problem but I could not figure it out the
>> problem. I reinstalled fftw, g++, and gcc but it did not help!
>>
>> I would be so grateful if you could tell me your idea about this issue?
>>
>> Best Regards,
>>
>> Faramarz
>>
>>
>
> --
> Giacomo Fiorin
> Associate Professor of Research, Temple University, Philadelphia, PA
> Contractor, National Institutes of Health, Bethesda, MD
> http://goo.gl/Q3TBQU
> https://github.com/giacomofiorin
>

-- 
Giacomo Fiorin
Associate Professor of Research, Temple University, Philadelphia, PA
Contractor, National Institutes of Health, Bethesda, MD
http://goo.gl/Q3TBQU
https://github.com/giacomofiorin

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