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Problems in building CESM 1.2.2 on local machine

J

judykeystsai@gmail_com

New Member
Hi there,I've been trying to build the CESM 1.2.2 on my local machine but it failed.Here's the message when I executed the .build file:-------------------------------------------------------------------------
 CESM BUILDNML SCRIPT STARTING
 - To prestage restarts, untar a restart.tar file into /mc1s1/s6/cxt334/Research/CESM/ICE_Sheet/CESM_FGCN/run
 infile is /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/Buildconf/cplconf/cesm_namelist
CAM writing dry deposition namelist to drv_flds_in
Writing ocean component namelist to ./docn_in
CAM writing namelist to atm_in
CLM configure done.
CLM adding use_case 2000_glacierMEC_control defaults for var glc_nec with val 10
CLM adding use_case 2000_glacierMEC_control defaults for var glc_smb with val .true.
CLM adding use_case 2000_glacierMEC_control defaults for var hist_fincl2 with val QICE
CLM adding use_case 2000_glacierMEC_control defaults for var hist_mfilt with val 1,1
CLM adding use_case 2000_glacierMEC_control defaults for var hist_nhtfrq with val 0,-8760
CLM adding use_case 2000_glacierMEC_control defaults for var sim_year with val 2000
CLM adding use_case 2000_glacierMEC_control defaults for var sim_year_range with val constant
CLM adding use_case 2000_glacierMEC_control defaults for var stream_year_first_ndep with val 2000
CLM adding use_case 2000_glacierMEC_control defaults for var stream_year_last_ndep with val 2000
CLM adding use_case 2000_glacierMEC_control defaults for var use_case_desc with val Running an IG case for 2000 conditions with the ice sheet model glimmer
CICE configure done.
 CESM BUILDNML SCRIPT HAS FINISHED SUCCESSFULLY
-------------------------------------------------------------------------
-------------------------------------------------------------------------
 CESM PRESTAGE SCRIPT STARTING
 - Case input data directory, DIN_LOC_ROOT, is /home/mc2/cxt334/CESM/CESM_B_GRL/inputdata
 - Checking the existence of input datasets in DIN_LOC_ROOT
 CESM PRESTAGE SCRIPT HAS FINISHED SUCCESSFULLY
-------------------------------------------------------------------------
-------------------------------------------------------------------------
 CESM BUILDEXE SCRIPT STARTING
rm: No match.
 COMPILER is pgi
 - Build Libraries: mct gptl pio csm_share
Mon Nov 10 15:48:05 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/mct.bldlog.141110-154800
Mon Nov 10 15:48:05 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/gptl.bldlog.141110-154800
Mon Nov 10 15:48:05 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/pio.bldlog.141110-154800
Mon Nov 10 15:48:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/csm_share.bldlog.141110-154800
Mon Nov 10 15:48:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/atm.bldlog.141110-154800
Mon Nov 10 15:48:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lnd.bldlog.141110-154800
Mon Nov 10 15:48:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/ice.bldlog.141110-154800
Mon Nov 10 15:48:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/ocn.bldlog.141110-154800
Mon Nov 10 15:48:07 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc.bldlog.141110-154800
Mon Nov 10 15:48:09 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/wav.bldlog.141110-154800
Mon Nov 10 15:48:09 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/rof.bldlog.141110-154800
Mon Nov 10 15:48:09 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.bldlog.141110-154800
ERROR: cesm.buildexe.csh failed, see /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.bldlog.141110-154800
ERROR: cat /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.bldlog.141110-154800

 And I looked at the cesm.bldlog.141110-154800, which said:Mon Nov 10 16:01:06 EST 2014 /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.bldlog.141110-160055
-------------------------------------------------------------------------
 Building a single executable version of CESM
-------------------------------------------------------------------------
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/Tools/mkSrcfiles
cp -f /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm/obj/Filepath /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm/obj/Deppath
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/Tools/mkDepends  Deppath Srcfiles > /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm/obj/Depends
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/Tools/mkSrcfiles
mpif90  -o /home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.exe ccsm_comp_mod.o ccsm_driver.o mrg_mod.o seq_avdata_mod.o seq_diag_mct.o seq_domain_mct.o seq_flux_mct.o seq_frac_mct.o seq_hist_mod.o seq_map_esmf.o seq_map_mod.o seq_mctext_mod.o seq_rest_mod.o  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -latm  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -lice  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -llnd  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -locn  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -lrof  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -lglc  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/lib/ -lwav  -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib/ -lglimmercismfortran -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/MCT/noesmf/a1l1r1i1o1g1w1/csm_share -lcsm_share -L/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/pgi/openmpi/nodebug/nothreads/lib -lpio -lgptl -lmct -lmpeu -L/usr/global/netcdf-4.3.2-pgi/lib -lnetcdff -lnetcdf   -time -Wl,--allow-multiple-definition  -nomp
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcgs.f.o): In function `dcgs_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:275: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:295: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:309: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:309: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcgs.f.o): In function `isdcgs_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1083: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1091: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1093: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1099: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1101: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcgs.f.o):/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcgs.f:1106: more undefined references to `dnrm2_' follow
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(glam_strs2.F90.o): In function `glam_strs2_fgmres_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6353: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6367: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6398: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6408: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6417: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6417: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6421: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6475: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglide/glam_strs2.F90:6495: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcg.f.o): In function `dcg_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:266: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:274: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:282: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:292: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:292: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcg.f.o): In function `isdcg_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1011: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1015: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1017: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1023: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1025: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dcg.f.o):/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dcg.f:1030: more undefined references to `dnrm2_' follow
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `dgmres_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:427: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:436: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:450: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `dhels_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1362: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `dorth_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1618: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1625: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1625: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1629: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1640: undefined reference to `ddot_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1640: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `dpigmr_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1850: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1875: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1875: undefined reference to `dscal_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1916: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1925: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1935: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1966: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:1969: undefined reference to `dscal_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2030: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2037: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `drlcal_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2120: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2141: undefined reference to `dscal_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `dxlcal_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2295: undefined reference to `daxpy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2302: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/glc/lib//libglimmercismfortran.a(dgmres.f.o): In function `isdgmr_':
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2570: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2570: undefined reference to `dscal_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2589: undefined reference to `dscal_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2622: undefined reference to `dcopy_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2630: undefined reference to `dnrm2_'
/home/mc2/cxt334/CESM/CESM_Source/cesm1_2_2/models/glc/cism/glimmer-cism/libglimmer-solve/SLAP/dgmres.f:2635: undefined reference to `dnrm2_'
gmake: *** [/home/mc2/cxt334/CESM/CESM_FGCN/CESM_FGCN_CTL/cesm.exe] Error 2


I also changed the "env_mach_specific" and having these:   setenv NETCDF /usr/global/netcdf-4.3.2-pgi
   setenv NETCDF_PATH $NETCDF
   setenv LIB_NETCDF $NETCDF_PATH/lib

And fo "Macros" file (only shown 2 lines that have been changed):...SLIBS += -L$(LIB_NETCDF) -lnetcdff -lnetcdf....NETCDF_PATH:= /usr/global/netcdf-4.3.2-pgiDoes anyone can help me identifiy what the problems are?Thanks
 
J

jedwards

CSEG and Liaisons
Staff member
The particular configuration that you are trying to build requires the lapack library be installed and linked on your system.
 
1

18729351715@163_com

Member
Hello, the surfdata what you use , it is your own or the surfdata_1.9x2.5_simyr2000_glcmec10_c120927.nc ?And could you give me some advice how to use mwn surfdata and forcing data ?
 
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