Undefined symbols for architecture x86_64

[Arjen Markus]

Can you find these symbols, like fjul_dutcoftai, in the source files of FVCOM?

If so, you may be missing one or more object files in the link step.
An alternative is that the naming conventions are different.

You may also require to add yet another library.

Regards,

Arjen

2013/10/20 Felipe Pimenta <felipepimenta@gmail.com>:
> I am using gfortran to compile an ocean circulation model (FVCOM) on a
> Mac OS X 10.8.5.
>
> Everything goes well with the compilation until the error below results.
>
> Does anybody have any idea what is missing?
>
> Thanks,
>
> Felipe
>
>
>
> make: Circular mod_prec.o <- mod_prec.o dependency dropped.
> /usr/local/bin/gfortran    -O3    func_pointer.o mod_prec.o sinter.o
> mod_types.o mod_time.o mod_main.o mod_spherical.o mod_utils.o
> mod_clock.o eqs_of_state.o mod_bulk.o mod_interp.o mod_par.o
> mod_ncll.o mod_nctools.o mod_wd.o mod_sng.o mod_heatflux.o mod_input.o
> mod_force.o mod_obcs.o mod_petsc.o mod_semi_implicit.o mod_non_hydro.o
> mod_set_time.o ice_kinds_mod.o ice_model_size.o ice_domain.o
> ice_constants.o ice_fileunits.o ice_state.o ice_work.o ice_grid.o
> ice_albedo.o ice_calendar.o ice_flux.o ice_flux_in.o ice_itd.o
> ice_mechred.o ice_itd_linear.o ice_scaling.o ice_atmo.o ice_ocean.o
> ice_therm_vertical.o ice_init.o ice_therm_itd.o mod_ice2d.o mod_ice.o
> mod_startup.o mod_wqm.o mod_ncdio.o mod_setup.o mod_newinp.o
> particle.o linklist.o mod_lag.o mod_northpole.o mod_pwp.o mod_dye.o
> mod_optimal_interpolation.o mod_report.o mod_probe.o mod_gotm.o
> mod_balance_2d.o mod_tridiag.o mod_scal.o mod_meanflow.o mod_obcs2.o
> mod_obcs3.o mod_sed.o mod_enkf.o mod_etkf.o mod_rrk.o mod_rrkf_obs.o
> mod_rrkassim.o mod_enkf_ncd.o enkf_ncdio.o mod_enkf_obs.o
> mod_enkfassim.o mod_assim.o mod_nesting.o mod_visit.o mod_plbc.o
> mod_dam.o mod_station_timeseries.o mod_boundschk.o mod_main_wave.o
> swmod1.o swmod2.o swmod3.o mod_action_im.o mod_action_ex.o
> mod_wavesetup.o mod_wave_current_interaction.o mod_bbl.o fvcom.o
> genmap.o tge.o longshore_flow.o cell_area.o open_all.o load_grid.o
> allocate_all.o setup_domain.o genmap_obc.o genmap_lsf.o print_vals.o
> coords_n_const.o shape_coef_gcn.o shape_coef_gcy.o depth_grad.o
> grid_metrics.o cntrl_prmtrs.o init_sed.o internal_step.o bcond_gcn.o
> bcond_gcy.o adjust2d3d.o brough.o advection_edge_gcn.o
> advection_edge_gcy.o ghostuv.o advave_edge_gcn.o advave_edge_gcy.o
> phy_baropg.o baropg.o external_step.o extel_edge.o extuv_edge.o
> depth_check.o vertvl_edge.o adv_uv_edge_gcn.o adv_uv_edge_gcy.o
> vdif_uv.o extelpf_edge.o wreal.o viscofh.o adv_q.o fct_q2.o fct_q2l.o
> vdif_q.o adv_t.o adv_s.o fct_t.o vdif_ts.o vdif_ts_gom.o fct_s.o
> bcond_ts.o adjust_ts.o conv_over.o visitsim.o startup_type.o
> edge_len.o adcor.o icing.o rho_pmean.o calc_vort.o namelist.o
> nh_set_nesting.o mod_bio_3D.o mod_onedtide.o ocpmix.o ocpcre.o
> ocpids.o swanpre1.o swanpre2.o swanser.o swanmain.o swancom1.o
> swancom2.o swancom3.o swancom4.o swancom5.o       -L
> /Users/felipe/Work/UFSC/GCN/research/ocean/model/FVCOM/FVCOM3.1.6/FVCOM_source/libs/netcdf
> -lnetcdf -L /Users/felipe/Work/UFSC/GCN/research/ocean/model/FVCOM/FVCOM3.1.6/FVCOM_source/libs/julian
> -ljulian         -o fvcom
> Undefined symbols for architecture x86_64:
>   "_fjul_dutcoftai_", referenced from:
>       ___mod_time_MOD_write_datetime in mod_time.o
>   "_fjul_mjdoftai_", referenced from:
>       ___mod_time_MOD_read_datetime in mod_time.o
>   "_fjul_taiofdutc_", referenced from:
>       ___mod_time_MOD_read_datetime in mod_time.o
>   "_fjul_taiofmjd_", referenced from:
>       ___mod_time_MOD_write_datetime in mod_time.o
>   "_gjul_formatdate_", referenced from:
>       _fjul_formatdate_ in libjulian.a(fjulian.o)
>   "_gjul_formatpds_", referenced from:
>       _fjul_formatpds_ in libjulian.a(fjulian.o)
>   "_gjul_formatsql_", referenced from:
>       _fjul_formatsql_ in libjulian.a(fjulian.o)
>   "_gjul_formattime_", referenced from:
>       _fjul_formattime_ in libjulian.a(fjulian.o)
>   "_gjul_initleaps_", referenced from:
>       _fjul_initleaps_ in libjulian.a(fjulian.o)
>   "_gjul_parsedate_", referenced from:
>       _fjul_parsedate_ in libjulian.a(fjulian.o)
>   "_gjul_parsedt_", referenced from:
>       _fjul_parsedt_ in libjulian.a(fjulian.o)
>   "_gjul_parsetime_", referenced from:
>       _fjul_parsetime_ in libjulian.a(fjulian.o)
> ld: symbol(s) not found for architecture x86_64
> collect2: error: ld returned 1 exit status
> make: *** [fvcom] Error 1
> matadeiro:FVCOM_source felipe$ uname -a
> Darwin matadeiro.local 12.5.0 Darwin Kernel Version 12.5.0: Sun Sep 29
> 13:33:47 PDT 2013; root:xnu-2050.48.12~1/RELEASE_X86_64 x86_64
> matadeiro:FVCOM_source felipe$
>
> --
> ______________________________________________
>
> Felipe M. Pimenta
> Universidade Federal de Santa Catarina / UFSC
> Trindade, Florianópolis, SC, Brasil, 88010-970
> Fone: +55 (48) 3721-9286
> Email: felipe.pimenta@ufsc.br
> ______________________________________________