So it looks like some of the external libraries (BLAS/LAPACK maybe?) were
built with position-independent code (-fPIC) and by default the libraries
cpptraj is building do not have that turned on. Try removing the libraries
from $CPPTRAJHOME/lib and reconfigure with the -shared flag to build
everything with PIC on .
-Dan
On Sun, Jan 5, 2025 at 12:05 AM James Kress via AMBER <amber.ambermd.org>
wrote:
> I'm trying to install the Dec 6, 2025 version of cpptraj from github. I
> have RHEL 8.10 which is up to date.
>
> I do the ./configure gnu
> Then make install
>
> The configure step runs with no errors.
> The make install step ends with this error message:
>
> /bin/rm -f libtng_io.a
> ar cqs libtng_io.a md5.o tng_io.o tng_compress.o coder.o warnmalloc.o
> fixpoint.o xtc3.o bwlzh.o xtc2.o widemuldiv.o huffmem.o vals16.o bwt.o
> mtf.o
> rle.o lz77.o dict.o huffman.o merge_sort.o
> make[2]: Leaving directory '/work/cpptraj/src/tng'
> Link cpptraj
> /usr/bin/ld: arpack/libarpack.a(dsaupd.o)(.text+0x124): unresolvable
> R_X86_64_PC32 relocation against symbol `timing_'
> /usr/bin/ld: final link failed: Nonrepresentable section on output
> collect2: error: ld returned 1 exit status
> make[1]: *** [Makefile:50: cpptraj] Error 1
> make[1]: Leaving directory '/work/cpptraj/src'
> make: *** [Makefile:10: install] Error 2
>
> The complete output from the configure and make install is in the attached
> file.
>
> Any suggestions on how to fix this?
>
> Thanks.
>
> Jim
> James Kress Ph.D., President
> The KressWorksR Foundation
> An IRS Approved 501 (c)(3) Charitable, Nonprofit Corporation
> "ENGINEERING THE CURE" C
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>
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Received on Sun Jan 05 2025 - 10:00:02 PST
