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<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
Hi Martin ,</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<br>
</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
Before anything thank you so much for your help. I will try to answer all you questions.</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<br>
</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important">what
is the platform, the compiler?</span></div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
The platform in linux <span>2.6.32-431.TH.x86_64 GNU/Linux. Red Hat Enterprise Linux Server release 6.5. </span>I am using intel compilers wrapped them in mpi. The version of the compiler is 14.0.2<br style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255)">
<span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important">details
of the configuration (content of code-directory and namelist files)</span></div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
I am running a simple simulation with open boundaries. I load the packages <span>gfd, </span><span></span>obcs, mnc and diagnostics <span style="font-family: Calibri, Helvetica, sans-serif; background-color: rgb(255, 255, 255); display: inline !important"><span> </span>using
the packages.config. The frequency of the open boundaries is stated in the data file. This is the data file</span></div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span style="font-family: Calibri, Helvetica, sans-serif; background-color: rgb(255, 255, 255); display: inline !important"><span> Model parameters<br>
</span>
<div># Continuous equation parameters<br>
</div>
<div> &PARM01<br>
</div>
<div> tRef=23.,23.,<br>
</div>
<div> sRef=35.,35.,<br>
</div>
<div> selectCoriMap=4,<br>
</div>
<div> viscAh=4.E2,<br>
</div>
<div> f0=1.E-4,<br>
</div>
<div> beta=1.E-11,<br>
</div>
<div> rhoNil=1000.,<br>
</div>
<div> gBaro=9.81,<br>
</div>
<div> rigidLid=.FALSE.,<br>
</div>
<div> implicitFreeSurface=.TRUE.,<br>
</div>
<div># momAdvection=.FALSE.,<br>
</div>
<div> tempStepping=.FALSE.,<br>
</div>
<div> saltStepping=.FALSE.,<br>
</div>
<div> &<br>
</div>
<div><br>
</div>
<div># Elliptic solver parameters<br>
</div>
<div> &PARM02<br>
</div>
<div> cg2dTargetResidual=1.E-7,<br>
</div>
<div> cg2dMaxIters=1000,<br>
</div>
<div> &<br>
</div>
<div><br>
</div>
<div># Time stepping parameters<br>
</div>
<div> &PARM03<br>
</div>
<div> nIter0=0,<br>
</div>
<div> nTimeSteps=100,</div>
<div> deltaT=1200.0,<br>
</div>
<div> pChkptFreq=31104000.0,<br>
</div>
<div> chkptFreq=15552000.0,<br>
</div>
<div> dumpFreq=15552000.0,<br>
</div>
<div> monitorFreq=1200.,<br>
</div>
<div> monitorSelect=2,</div>
<div> periodicExternalForcing=.TRUE.,<br>
</div>
<div> externForcingPeriod= 1200.,<br>
</div>
<div> externForcingCycle = 12000000.,<br>
</div>
<div> &<br>
</div>
<div># Gridding parameters<br>
</div>
<div> &PARM04</div>
<div>
<div> usingSphericalPolarGrid=.TRUE.,<br>
</div>
<div> delX=43*1.,<br>
</div>
<div> delY=43*1.,<br>
</div>
<div> xgOrigin=-21.,<br>
</div>
<div> ygOrigin=-21.,<br>
</div>
<div> delR=2*500.,<br>
</div>
<div> &<br>
</div>
<div><br>
</div>
<div># Input datasets<br>
</div>
<div> &PARM05<br>
</div>
<div> bathyFile='bathy_cir.bin'</div>
<div> meridWindFile=,<br>
</div>
<div> &<br>
</div>
<div><br>
</div>
<span></span>This is the data.obcs</div>
<div><br>
</div>
<div><span># Open-boundaries<br>
</span>
<div> &OBCS_PARM01<br>
</div>
<div> OBCSfixTopo=.FALSE.,<br>
</div>
<div> OB_Ieast=0,<br>
</div>
<div> OB_Iwest=0,<br>
</div>
<div> OB_Jnorth(16:28)=13*41,<br>
</div>
<div> OB_Jsouth(16:28)=13*3,<br>
</div>
<div> useOBCSprescribe = .TRUE.,<br>
</div>
<div> OBNvFile = 'OBzonalV.bin',<br>
</div>
<div> OBSvFile = 'OBzonalV.bin',<br>
</div>
<div> OBNuFile = 'OBmeridU.bin',<br>
</div>
<div> OBSuFile = 'OBmeridU.bin',</div>
<div> OBCS_monitorFreq=1200.00,<br>
</div>
<div> OBCS_monSelect = 1,<br>
</div>
<div> &<br>
</div>
<div><br>
</div>
<div> &OBCS_PARM02</div>
<div> &<br>
</div>
<span></span></div>
<span></span></span></div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;">are
you using latest code (some of the flags in the build-option look very outdated ?)?</span><br>
</div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;">Yes,
it is the latest code (version MITgcm_c67k). About the flags in my build version, I did not make my own one. I used one that I found in our research group.</span></div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;"><br>
</span></div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;">Kind
regards,</span></div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;"><br>
</span></div>
<div style=""><span style="color: rgb(50, 49, 48); font-family: "Segoe UI", "Segoe UI Web (West European)", "Segoe UI", -apple-system, BlinkMacSystemFont, Roboto, "Helvetica Neue", sans-serif; font-size: 14.6667px; background-color: rgb(255, 255, 255); display: inline !important;">Estanislao</span></div>
<div id="appendonsend"></div>
<div style="font-family:Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>De:</b> MITgcm-support <mitgcm-support-bounces@mitgcm.org> en nombre de mitgcm-support-request@mitgcm.org <mitgcm-support-request@mitgcm.org><br>
<b>Enviado:</b> jueves, 22 de agosto de 2019 11:57<br>
<b>Para:</b> mitgcm-support@mitgcm.org <mitgcm-support@mitgcm.org><br>
<b>Asunto:</b> MITgcm-support Digest, Vol 194, Issue 10</font>
<div> </div>
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Today's Topics:<br>
<br>
1. Reading errors (Estanislao Gavilan Pascual-Ahuir)<br>
2. Re: Reading errors (Martin Losch)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Thu, 22 Aug 2019 08:51:28 +0000<br>
From: Estanislao Gavilan Pascual-Ahuir <dramauh@hotmail.com><br>
To: "mitgcm-support@mitgcm.org" <mitgcm-support@mitgcm.org><br>
Subject: [MITgcm-support] Reading errors<br>
Message-ID:<br>
<DB8PR04MB7002D32A678367A36AD841A0A9A50@DB8PR04MB7002.eurprd04.prod.outlook.com><br>
<br>
Content-Type: text/plain; charset="iso-8859-1"<br>
<br>
Hi Community,<br>
<br>
I have just started using MITgcm model. Last week I spent some time learning how to open boundary conditions. I was able to sort out everything except for this (error 1). It turns out that the model cannot find the bin file. After doing some research in the
mailbox of mitgcm. I found out that is due to the compiler settings. As it was advice, I set -DWORDLENGTH=1. Now, I am having a different error (error 2).<br>
<br>
error 1 forrtl: severe (36): attempt to access non-existent record, unit 16, file /estanis/MITgcm/verification/tutorial_circular_polar_basin/run/obzonalv.bin<br>
error 2 'forrtl: severe (66): output statement overflows record'<br>
<br>
I went again to the emailbox and I found out I need to change this.<br>
<br>
<br>
<br>
case nas+pgi:<br>
set LN = ( '/bin/ln -s' )<br>
set CPP = ( '/lib/cpp -traditional -P' )<br>
set DEFINES = ( ${DEFINES} '-DALLOW_USE_MPI -DALWAYS_USE_MPI<br>
-DWORDLENGTH=4' )<br>
set FC = ( 'ifort' )<br>
set FFLAGS = ( '-fp-model strict -132 -r8 -i4 -w95 -W0 -WB -convert<br>
big_endian -assume byterecl' )<br>
set FOPTIM = ( '-O0 -noalign')<br>
set LINK = ( 'ifort' )<br>
set INCLUDES = ( '-I/opt/sgi/mpt/1.12.0.nas/include<br>
-I/opt/pd/netcdf/3.6.0-p1/include' )<br>
set LIBS = ( '-L/opt/sgi/mpt/1.12.0.nas/lib -lmpi<br>
-L/opt/pd/netcdf/3.6.0-p1/lib -lnetcdf' )<br>
breaksw<br>
<br>
However, this solution was for a specific configuration for a cluster in Columbia (I think). My build file is a bit different:<br>
<br>
# tested on faulks, 20030818<br>
#<br>
# Build options for the intel 8.0 fortran compiler<br>
# the compiler is now called ifort (not ifc) and it appears to<br>
# need -DWORDLENGTH=1 and not -DWORDLENGTH=4 (which is what ifc 6.0) used to have.<br>
# ph: use ifort compiler options -convert big_endian -assume byterecl<br>
FC=mpif90<br>
F90C=mpif90<br>
CC=mpicc<br>
DEFINES="-DWORDLENGTH=4 -DALLOW_USE_MPI -DALWAYS_USE_MPI"<br>
#DEFINES="-DALLOW_USE_MPI -DALWAYS_USE_MPI"<br>
LINK=mpif90<br>
CPP="cpp -traditional -P"<br>
#INCLUDES='-I/usr/include/netcdf'<br>
#INCLUDES="-I. -I$NETCDF/include -I/nuist/p/public/app/mvapich2/2.0b/intel/include"<br>
#LIBS="-L$NETCDF/lib -lnetcdff -lnetcdf -L/nuist/p/public/app/mvapich2/2.0b/intel/lib -lmpich -lpthread"<br>
INCLUDES="-I. -I$NETCDF/include -I/WORK/app/netcdf/4.3.2/01-CF-14/include -I/usr/local/mpi3-dynamic/include"<br>
LIBS="-L$NETCDF/lib -lnetcdff -lnetcdf -I/WORK/app/netcdf/4.3.2/01-CF-14/lib"<br>
# Note that the -mp switch is for ieee "maintain precision" and is<br>
# roughly equivalent to -ieee<br>
if test "x$IEEE" = x ; then<br>
# lz( FOPTIM='-O3 -align' )<br>
FOPTIM=<br>
#P3 FOPTIM=$FOPTIM' -tpp6 -xWKM'<br>
#P4 FOPTIM=$FOPTIM' -tpp7 -xWKM'<br>
FFLAGS="-132 -r8 -i4 -g -convert big_endian -assume byterecl $INCLUDES -I/usr/local/mpi3-dynamic/include"<br>
FOPTIM="-O1 -align"<br>
else<br>
FOPTIM="-O0 -noalign"<br>
FFLAGS="-132 -r8 -i4 -w95 -W0 -WB -xN -pc64 -convert big_endian -assume byterecl $INCLUDES -I/usr/local/mpi3-dynamic/include"<br>
#FFLAGS='-mp -132 -r8 -i4 -w95 -W0 -WB'<br>
fi<br>
#if test "x$IEEE" = x ; then<br>
# FFLAGS='-Wimplicit -Wunused -Wuninitialized -fno-second-underscore'<br>
# FOPTIM='-O3 -funroll-loops'<br>
#else<br>
# FFLAGS='-Wimplicit -Wunused -ffloat-store'<br>
# FOPTIM='-O0 '<br>
#fi<br>
<br>
Thanks in advance for all your help<br>
<br>
Kind regards,<br>
<br>
Estanis<br>
<br>
<br>
<br>
<br>
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------------------------------<br>
<br>
Message: 2<br>
Date: Thu, 22 Aug 2019 11:57:46 +0200<br>
From: Martin Losch <Martin.Losch@awi.de><br>
To: MITgcm Support <mitgcm-support@mitgcm.org><br>
Subject: Re: [MITgcm-support] Reading errors<br>
Message-ID: <9FF2A137-C599-44C8-B120-D9A4DAF9508B@awi.de><br>
Content-Type: text/plain; charset="utf-8"<br>
<br>
Hi Estanis,<br>
<br>
this looks like a convoluted problem. We would need more information about the problem:<br>
what is the platform, the compiler?<br>
details of the configuration (content of code-directory and namelist files)<br>
are you using latest code (some of the flags in the build-option look very outdated ?)?<br>
<br>
Your error message (attempt to access non-existent record) usually means that you are reading beyond the end of the file (i.e. not enough data in the file)<br>
<br>
Not finding an input file usually does not have anything to do with the compiler setting, especially not the WORDLENGTH.<br>
<br>
Martin<br>
<br>
> On 22. Aug 2019, at 10:51, Estanislao Gavilan Pascual-Ahuir <dramauh@hotmail.com> wrote:<br>
> <br>
> Hi Community,<br>
> <br>
> I have just started using MITgcm model. Last week I spent some time learning how to open boundary conditions. I was able to sort out everything except for this (error 1). It turns out that the model cannot find the bin file. After doing some research in
the mailbox of mitgcm. I found out that is due to the compiler settings. As it was advice, I set -DWORDLENGTH=1. Now, I am having a different error (error 2).
<br>
> <br>
> error 1 forrtl: severe (36): attempt to access non-existent record, unit 16, file /estanis/MITgcm/verification/tutorial_circular_polar_basin/run/obzonalv.bin<br>
> error 2 'forrtl: severe (66): output statement overflows record'<br>
> <br>
> I went again to the emailbox and I found out I need to change this.<br>
> <br>
> <br>
> case nas+pgi:<br>
> set LN = ( '/bin/ln -s' )<br>
> set CPP = ( '/lib/cpp -traditional -P' )<br>
> set DEFINES = ( ${DEFINES} '-DALLOW_USE_MPI -DALWAYS_USE_MPI<br>
> -DWORDLENGTH=4' )<br>
> set FC = ( 'ifort' )<br>
> set FFLAGS = ( '-fp-model strict -132 -r8 -i4 -w95 -W0 -WB -convert<br>
> big_endian -assume byterecl' )<br>
> set FOPTIM = ( '-O0 -noalign')<br>
> set LINK = ( 'ifort' )<br>
> set INCLUDES = ( '-I/opt/sgi/mpt/1.12.0.nas/include<br>
> -I/opt/pd/netcdf/3.6.0-p1/include' )<br>
> set LIBS = ( '-L/opt/sgi/mpt/1.12.0.nas/lib -lmpi<br>
> -L/opt/pd/netcdf/3.6.0-p1/lib -lnetcdf' )<br>
> breaksw<br>
> <br>
> However, this solution was for a specific configuration for a cluster in Columbia (I think). My build file is a bit different:<br>
> <br>
> # tested on faulks, 20030818<br>
> #<br>
> # Build options for the intel 8.0 fortran compiler<br>
> # the compiler is now called ifort (not ifc) and it appears to<br>
> # need -DWORDLENGTH=1 and not -DWORDLENGTH=4 (which is what ifc 6.0) used to have.<br>
> # ph: use ifort compiler options -convert big_endian -assume byterecl<br>
> FC=mpif90<br>
> F90C=mpif90<br>
> CC=mpicc<br>
> DEFINES="-DWORDLENGTH=4 -DALLOW_USE_MPI -DALWAYS_USE_MPI"<br>
> #DEFINES="-DALLOW_USE_MPI -DALWAYS_USE_MPI"<br>
> LINK=mpif90<br>
> CPP="cpp -traditional -P"<br>
> #INCLUDES='-I/usr/include/netcdf'<br>
> #INCLUDES="-I. -I$NETCDF/include -I/nuist/p/public/app/mvapich2/2.0b/intel/include"<br>
> #LIBS="-L$NETCDF/lib -lnetcdff -lnetcdf -L/nuist/p/public/app/mvapich2/2.0b/intel/lib -lmpich -lpthread"<br>
> INCLUDES="-I. -I$NETCDF/include -I/WORK/app/netcdf/4.3.2/01-CF-14/include -I/usr/local/mpi3-dynamic/include"<br>
> LIBS="-L$NETCDF/lib -lnetcdff -lnetcdf -I/WORK/app/netcdf/4.3.2/01-CF-14/lib"<br>
> # Note that the -mp switch is for ieee "maintain precision" and is<br>
> # roughly equivalent to -ieee<br>
> if test "x$IEEE" = x ; then<br>
> # lz( FOPTIM='-O3 -align' )<br>
> FOPTIM=<br>
> #P3 FOPTIM=$FOPTIM' -tpp6 -xWKM'<br>
> #P4 FOPTIM=$FOPTIM' -tpp7 -xWKM'<br>
> FFLAGS="-132 -r8 -i4 -g -convert big_endian -assume byterecl $INCLUDES -I/usr/local/mpi3-dynamic/include"<br>
> FOPTIM="-O1 -align"<br>
> else<br>
> FOPTIM="-O0 -noalign"<br>
> FFLAGS="-132 -r8 -i4 -w95 -W0 -WB -xN -pc64 -convert big_endian -assume byterecl $INCLUDES -I/usr/local/mpi3-dynamic/include"<br>
> #FFLAGS='-mp -132 -r8 -i4 -w95 -W0 -WB'<br>
> fi<br>
> #if test "x$IEEE" = x ; then<br>
> # FFLAGS='-Wimplicit -Wunused -Wuninitialized -fno-second-underscore'<br>
> # FOPTIM='-O3 -funroll-loops'<br>
> #else<br>
> # FFLAGS='-Wimplicit -Wunused -ffloat-store'<br>
> # FOPTIM='-O0 '<br>
> #fi<br>
> <br>
> Thanks in advance for all your help<br>
> <br>
> Kind regards,<br>
> <br>
> Estanis<br>
> <br>
> <br>
> <br>
> <br>
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<br>
End of MITgcm-support Digest, Vol 194, Issue 10<br>
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