Re: [AMBER] AMBER18 installation error

From: aa <>
Date: Tue, 3 Sep 2019 23:31:25 +0800 (CST)

Dear Dac
Thanks. I am sorry that my statement is not accurate. In fact, I used the gnu and intel compilers to install them separately. When using the gnu compiler for installation£¨Consistent with the manual£º./configure gnu; source; make install"£©, the following error occurred at the "make install" step:
¡°/public/home/test/amber18/lib/libfftw3.a(vrank3-transpose.o): In function `apply_cut':
vrank3-transpose.c:(.text+0x5f7): undefined reference to `_intel_fast_memmove'
vrank3-transpose.c:(.text+0x661): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x6b9): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x748): undefined reference to `_intel_fast_memmove'
vrank3-transpose.c:(.text+0x803): undefined reference to `_intel_fast_memcpy'
/public/home/test/amber18/lib/libfftw3.a(vrank3-transpose.o): In function `apply_toms513':
vrank3-transpose.c:(.text+0xf10): undefined reference to `_intel_fast_memset'
vrank3-transpose.c:(.text+0x1017): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x1037): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x1151): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x117b): undefined reference to `_intel_fast_memcpy'
vrank3-transpose.c:(.text+0x120c): undefined reference to `_intel_fast_memcpy'
/public/home/test/amber18/lib/libfftw3.a(vrank3-transpose.o):vrank3-transpose.c:(.text+0x1227): more undefined references to `_intel_fast_memcpy' follow
collect2: error: ld returned 1 exit status
make[2]: *** [/public/home/test/amber18/bin/sander] Error 1
make[2]: Leaving directory `/public/home/test/amber18/AmberTools/src/sander'
make[1]: *** [serial] Error 2
make[1]: Leaving directory `/public/home/test/amber18/AmberTools/src'

make: *** [install] Error 2¡±

I would like to know how to solve the problem. The gcc version is 4.8.5.

Best wishes

At 2019-09-03 21:29:50, "David A Case" <> wrote:
>On Tue, Sep 03, 2019, wrote:
>>I try to install AMBER18 using gnu and intel compiler, but both
>>encountered errors.
>What do you mean by "using gnu and intel compilers"? You have to choose
>one or the other. What were the arguments you gave to the
>configure script?
>My best guess is that your attempt to use the gnu compilers is actually
>seeing something left over from an earlier attempt to use Intel
>>The installation failed, the information:
>>/public/home/test/amber18/lib/libfftw3.a(vrank3-transpose.o): In function `apply_cut':
>>vrank3-transpose.c:(.text+0x5f7): undefined reference to `_intel_fast_memmove'
>>vrank3-transpose.c:(.text+0x661): undefined reference to `_intel_fast_memcpy'
>Is that possible? I'd suggest trying with a clean installation, and
>choosing just the gnu compilers.
>> ...I installed the openmpi based on gnu and intel compiler.
>Again, it looks like problems are arising from trying to use both gnu
>and intel compilers.
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Received on Tue Sep 03 2019 - 09:00:02 PDT
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