HI
I found the following error while compiling the ambertools13. I started
with AmberTools13.tar.bz2 as instructed in AmberTools13.pdf user manual. I
tried both intel and gnu compilers, but both failed. I followed the steps,
however skipped the step 3 as I already have the compilers.
Thank you
Chinthaka
make[3]: Entering directory `/home/srg/nadun/ambertools/
amber12/AmberTools/src/lib'
make[3]: Warning: File `nxtsec.o' has modification time 1.9e+02 s in the
future
make[3]: `nxtsec.o' is up to date.
make[3]: `random.o' is up to date.
make[3]: warning: Clock skew detected. Your build may be incomplete.
make[3]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/lib'
cd ../lapack && make skip
make[3]: Entering directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/lapack'
skipping compilation of LAPACK
make[3]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/lapack'
cd ../blas && make skip
make[3]: Entering directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/blas'
skipping compilation of BLAS
make[3]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/blas'
cd ../arpack && make install
make[3]: Entering directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/arpack'
make[3]: Warning: File `/home/srg/nadun/ambertools/amber12/lib/libarpack.a'
has modification time 1.9e+02 s in the future
make[3]: Nothing to be done for `install'.
make[3]: warning: Clock skew detected. Your build may be incomplete.
make[3]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/arpack'
gfortran -DMKL -DBINTRAJ -ffree-form
-I/home/srg/nadun/ambertools/amber12/include
-I/home/srg/nadun/ambertools/amber12/include
-I/opt/intel/cmkl/9.1.021/include -o pbsa dsvdc.o pbsa.o pb_read.o
pb_write.o getcoor.o runmd.o runmin.o force.o pb_init.o sa_driver.o
np_force.o pb_force.o pb_fddrv.o pb_iimdrv.o pb_nlsolver.o pb_exmol.o
pb_mpfrc.o pb_direct.o pb_list.o timer.o pb_fftsolv.o pb_fft.o egb.o ene.o
locmem.o myopen.o rdparm.o pb_lsolver.o decomp.o rgroup.o rfree.o debug.o
coed20.o indexg.o irre32.o phidev.o project.o qld.o coed6.o
irre31.o miniop.o iimod.o prodis.o qint.o wint.o transf.o curv.o
GrToPr.o jumps.o problem.o IIM.o regular.o gmres.o daxpy.o ddot.o
dheqr.o dpigmr.o dscal.o dslui2.o dxlcal.o dchkw.o dgmres.o dnrm2.o
drlcal.o dsilus.o dslui.o isdgmr.o dcopy.o dhels.o dorth.o
ds2y.o dslugm.o dsmv.o qs2i1d.o d1mach.o fdump.o i1mach.o
j4save.o xercnt.o xerhlt.o xermsg.o xerprn.o xersve.o xgetua.o bicg.o
dbcg.o dslui4.o dsluti.o dsmtv.o dslubc.o isdbcg.o pb_chkfrc.o svdcmp.o
svbksb.o pythag.o pb_augdrv.o gmresX.o interpX.o matvec3.o gen_dx_file.o
aug_iccg.o membrane.o fftw3.o \
../lib/nxtsec.o ../lib/random.o \
-L/home/srg/nadun/ambertools/amber12/lib -larpack
-Wl,--start-group /opt/intel/cmkl/9.1.021/lib/em64t/libmkl_intel_lp64.a
/opt/intel/cmkl/9.1.021/lib/em64t/libmkl_sequential.a
/opt/intel/cmkl/9.1.021/lib/em64t/libmkl_core.a -Wl,--end-group
-lpthread
gfortran: /opt/intel/cmkl/9.1.021/lib/em64t/libmkl_intel_lp64.a: No such
file or directory
gfortran: /opt/intel/cmkl/9.1.021/lib/em64t/libmkl_sequential.a: No such
file or directory
gfortran: /opt/intel/cmkl/9.1.021/lib/em64t/libmkl_core.a: No such file or
directory
make[2]: *** [pbsa] Error 1
make[2]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src/pbsa'
make[1]: *** [serial] Error 2
make[1]: Leaving directory
`/home/srg/nadun/ambertools/amber12/AmberTools/src'
make: *** [install] Error 2
Chinthaka Nadun Ratnaweera
Hand Lab Rm 1126
Mississippi State University
310 Presidents Circle
Starkville, MS 39762
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Received on Sat May 04 2013 - 13:30:02 PDT
