MM5 MPP - compiling problems 2

Accelerated Computing HPC Compilers Legacy PGI Compilers
1

Hi,

I’m working on a Linux Cluster Mandrake 9.1 with MPI-CH1.2.7 and MM5
When I try to compile MM5-MPP I get the following error message:


/cluster/mpich/bin/mpif77 -o mm5.mpp addall.o addrx1c.o addrx1n.o bdyin.o bdyrst.o bdyten.o bdyval.o cadjmx.o coef_diffu.o condload.o consat.o convad.o couple.o date.o dcpl3d.o dcpl3dwnd.o decouple.o define_comms.o diffu.o dm_io.o dots.o dtfrz.o fillcrs.o fkill_model.o gamma.o gauss.o hadv.o init.o initsav.o initts.o kfbmdata.o kill_model.o lb_alg.o lbdyin.o mhz.o mm5.o mp_equate.o mp_initdomain.o mp_shemi.o mparrcopy.o mpaspect.o nconvp.o nudge.o output.o outsav.o outtap.o outts.o outts_c.o param.o paramr.o rdinit.o savread.o settbl.o sfcrad.o shutdo.o slab.o solar1.o solve.o sound.o subch.o trans.o transm.o upshot_mm5.o vadv.o vecgath.o write_big_header.o write_fieldrec.o write_flag.o exmoiss.o cup.o cupara3.o maximi.o minimi.o mrfpbl.o tridi2.o initnest.o chknst.o nstlev1.o nstlev2.o nstlev3.o mp_stotndt.o smt2.o bcast_size.o merge_size.o mp_feedbk.o rdter.o lwrad.o swrad.o milliclock.o …/…/MPP/RSL/RSL/librsl.a -O2 -Mcray=pointer -tp p6 -pc 32 -Mnoframe -byteswapio -L/cluster/mpich/lib -lfmpich -lmpich
…/…/MPP/RSL/RSL/librsl.a(rsl_malloc.o)(.text+0x1e6): In function rsl_free': : undefined reference to errno’
…/…/MPP/RSL/RSL/librsl.a(rsl_malloc.o)(.text+0x204): In function rsl_free': : undefined reference to errno’
make[1]: [all] Error 2 (ignored)
/bin/mv mm5.mpp …/…/Run/mm5.mpp
/bin/mv: impossibile fare stat di mm5.mpp': No such file or directory make[1]: [all] Error 1 (ignored) make[1]: Leaving directory /cluster/MM5/MPP/build’

wich this
configure.user

#-----------------------------------------------------------------------------
RUNTIME_SYSTEM = “linux”
MPP_TARGET=$(RUNTIME_SYSTEM)

edit the following definition for your system

LINUX_MPIHOME = /cluster/mpich
MFC = $(LINUX_MPIHOME)/bin/mpif77
MCC = $(LINUX_MPIHOME)/bin/mpicc
MLD = $(LINUX_MPIHOME)/bin/mpif77
FCFLAGS = -O2 -Mcray=pointer -tp p6 -pc 32 -Mnoframe -byteswapio
LDOPTIONS = -O2 -Mcray=pointer -tp p6 -pc 32 -Mnoframe -byteswapio
#LOCAL_LIBRARIES = -L$(LINUX_MPIHOME)/build/LINUX/ch_p4/lib -lfmpich -lmpich
#LOCAL_LIBRARIES = -L$(LINUX_MPIHOME)/build/LINUX/ch_p4/p4/lib -lfmpich -lmpich
#LIB_PATH = -L $(PGI)/linux86-64/5.1/lib -L $(LINUX_MPIHOME)/lib -L /lib64
#LOCAL_LIBRARIES = $(LIB_PATH) -lgcc -lmpich -lfmpich -lrapl -lmpichfsup -lpthread $(LOCAL_OBJS
LOCAL_LIBRARIES = -L$(LINUX_MPIHOME)/lib -lfmpich -lmpich
MAKE = make -i -r
AWK = awk
SED = sed
CAT = cat
CUT = cut
EXPAND = expand
M4 = m4
CPP = /lib/cpp -C -P -traditional
CPPFLAGS = -DMPI -Dlinux -DSYSTEM_CALL_OK
CFLAGS = -DMPI -I$(LINUX_MPIHOME)/include
ARCH_OBJS = milliclock.o
IWORDSIZE = 4
RWORDSIZE = 4
LWORDSIZE = 4
#-----------------------------------------------------------------------------

Please could someone can help me to fix my problem
Thanks a lot!

Best Regards
Ezio

2

Hi Ezio,

UCAR fixed the ‘errno’ problem as of the MPP 3.7 release (See HERE). Linux changed how it handles the global variable ‘errno’ and many programs needed to be updated.

Hope this helps,
Mat

3

Thanks Mat,
with MPP 3.7 I’ve resolve ‘errno’ problem but now I have this error:


/cluster/mpich/bin/mpif77 -o mm5.mpp addall.o addrx1c.o addrx1n.o bdyin.o bdyrst.o bdyten.o bdyval.o cadjmx.o coef_diffu.o condload.o consat.o convad.o couple.o date.o dcpl3d.o dcpl3dwnd.o decouple.o define_comms.o diffu.o diffth.o diffthd.o diffmoi.o diffintp.o dm_io.o dots.o dtfrz.o fillcrs.o fkill_model.o gamma.o gauss.o hadv.o init.o initsav.o initts.o kfbmdata.o kill_model.o lb_alg.o lbdyin.o mhz.o mm5.o mp_equate.o mp_initdomain.o mp_shemi.o mparrcopy.o mpaspect.o nconvp.o nudge.o output.o outsav.o outtap.o outts.o outts_c.o param.o paramr.o rdinit.o rho_mlt.o savread.o settbl.o setvegfr.o sfcrad.o shutdo.o slab.o solar1.o solve.o sound.o subch.o trans.o transm.o upshot_mm5.o vadv.o vadv2.o vecgath.o write_big_header.o write_fieldrec.o write_flag.o exmoiss.o cup.o cupara3.o maximi.o minimi.o mrfpbl.o tridi2.o initnest.o chknst.o nstlev1.o nstlev2.o nstlev3.o nstlev4.o nstlev5.o mp_stotndt.o smt2.o bcast_size.o merge_size.o mp_feedbk.o rdter.o lwrad.o swrad.o milliclock.o …/…/MPP/RSL/RSL/librsl.a -O2 -Mcray=pointer -tp p6 -pc 32 -Mnoframe -byteswapio -L/cluster/mpich/lib -lfmpich -lmpich
/usr/bin/ld: cannot open kill_model.o: No such file or directory
make[1]: [all] Error 2 (ignored)
/bin/mv mm5.mpp …/…/Run/mm5.mpp
/bin/mv: impossibile fare stat di mm5.mpp': No such file or directory make[1]: [all] Error 1 (ignored) make[1]: Leaving directory /cluster/MM5/MPP/build’
[root@mm502 MM5]#

Please, where is my mistake?
Thanks, Ezio

4

Hi Ezio,

/usr/bin/ld: cannot open kill_model.o: No such file or directory

You need to look earlier in your log and determine why “kill_model.o” didn’t get compiled.

  • Mat