[ase-users] problem with the installation of dacapo on Ubuntu 14.04

[Luciano Costa]

Hey everyone,

I'm trying to install dacapo and it's my first time with it. I followed
each step
on the webpage, configuring FFTW and NETCDF. However, for the NETCDF I used
the latest stable version. When I used the following command line to
install it, occurred:

BLASLAPACK="-llapack -lf77blas -lcblas -latlas -lnetcdff -lnetcdf"
NETCDF=/usr/local/netcdf-4.3.3.1/lib
FFTW=/usr/local/fftw2-2.1.5-1.gfortran/lib  FFLAGS_OPT="-O3
-funroll-all-loops" make gfortran_fnosecond_underscore

...
gfortran -O3 -funroll-all-loops -fno-second-underscore -fPIC
-fconvert=big-endian -frecord-marker=4 -DFFTW -DQRAD_SWAP -DINTELLINUX
-DGFORTRAN -o dacapo.run
../netcdf/gfortran_fnosecond_underscore/netcdfinterface.o
../netcdf/gfortran_fnosecond_underscore/MakeRestrictedSetCopy.o
../gfortran_fnosecond_underscore_serial/basicdata.o run_context.o
van_us_data_module.o generate_kpoints.o  read_structure_netcdf.o bastr.o
chdop.o  efertr.o  mach.o fexcop.o genbop.o nlproj.o orthop.o wfinop.o
density_mixing.o setuop.o ionmov.o ion_conjgrad.o gen_coord.o auxmod.o
potion.o fft3d2.o forloc.o calvps.o inidir.o eferop.o eisdia.o dipole.o
kptana.o resmin.o corec.o pulay.o davidson.o qrutil.o gen_orthop.o qvan2.o
setuspot.o us_calcqr.o us_hpsi.o us_newd.o ylmr2.o gk_sort.o rmm_diss.o
wfcinit.o potinit.o us_force.o erfc.o eigsolve.o subproj.o bfgs.o
tmp_read.o matrix_utilities.o fftdimensions.o ewald_module.o dacapo.o
update_netcdf_history_module.o double_grid.o real_nonlocal.o applyh.o
angula.o stress.o madelung.o blochlmodule.o external_pot_module.o
addusdens.o pbe.o pbeunsp.o pw.o pwunsp.o  symana.o mulcen.o
gen_hamiltonian_matrix.o damden.o libtos.o
../blas/gfortran_fnosecond_underscore/libmyblas.a -llapack -lf77blas
-lcblas -latlas -lnetcdff -lnetcdf
/usr/local/netcdf-4.3.3.1/lib/libnetcdf.a
/usr/local/fftw2-2.1.5-1.gfortran/lib/libfftw.a
/usr/bin/ld:
/usr/local/netcdf-4.3.3.1/lib/libnetcdf.a(libnetcdf4_la-nc4hdf.o):
undefined reference to symbol 'H5DSattach_scale'
//usr/lib/x86_64-linux-gnu/libhdf5_hl.so.7: error adding symbols: DSO
missing from command line
collect2: error: ld returned 1 exit status
make[2]: *** [dacapo.run] Error 1
make[2]: Leaving directory
`/home/luciano/software/dacapo/src/gfortran_fnosecond_underscore_serial'
make[1]: *** [serial] Error 2
make[1]: Leaving directory `/home/luciano/software/dacapo/src'
make: *** [gfortran_fnosecond_underscore] Error 2

I tried to look at directly the access of that lib using ld and I got that:

ld /usr/lib/x86_64-linux-gnu/libhdf5_hl.so.7
ld: warning: cannot find entry symbol _start; not setting start address

Seems that NETCDF is trying to get it but it doesn't get access
symbol_start. Please, any suggestion? How can fix it?

Luciano T. Costa



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Luciano Tavares da Costa
e-mail to: costalt at gmail.com or *ltcosta at id.uff.br <ltcosta at id.uff.br>*

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