pnetcdf test/DRY RUN Error in wrf simulation
BasitAli Khan
BasitAli.Khan at kaust.edu.sa
Wed Jun 4 10:09:42 CDT 2014
Hi Rob,
Following is the snippet of the subroutine in wrf_io.F90. Actually line
2403 is just a variable declaration.
2380 subroutine
ext_ncd_write_field(DataHandle,DateStr,Var,Field,FieldTypeIn, &
2381 Comm, IOComm, DomainDesc, MemoryOrdIn, Stagger, DimNames,
&
2382
DomainStart,DomainEnd,MemoryStart,MemoryEnd,PatchStart,PatchEnd,Status)
2383 use wrf_data
2384 use ext_ncd_support_routines
2385 implicit none
2386 include 'wrf_status_codes.h'
2387 include 'netcdf.inc'
2388 integer ,intent(in) :: DataHandle
2389 character*(*) ,intent(in) :: DateStr
2390 character*(*) ,intent(in) :: Var
2391 integer ,intent(inout) :: Field(*)
2392 integer ,intent(in) :: FieldTypeIn
2393 integer ,intent(inout) :: Comm
2394 integer ,intent(inout) :: IOComm
2395 integer ,intent(in) :: DomainDesc
2396 character*(*) ,intent(in) :: MemoryOrdIn
2397 character*(*) ,intent(in) :: Stagger ! Dummy for
now
2398 character*(*) ,dimension(*) ,intent(in) :: DimNames
2399 integer ,dimension(*) ,intent(in) :: DomainStart,
DomainEnd
2400 integer ,dimension(*) ,intent(in) :: MemoryStart,
MemoryEnd
2401 integer ,dimension(*) ,intent(in) :: PatchStart,
PatchEnd
2402 integer ,intent(out) :: Status
2403 integer :: FieldType
2404 character (3) :: MemoryOrder
2405 type(wrf_data_handle) ,pointer :: DH
2406 integer :: NCID
2407 integer :: NDim
2408 character (VarNameLen) :: VarName
2409 character (3) :: MemO
2410 character (3) :: UCMemO
2411 integer :: VarID
2412 integer ,dimension(NVarDims) :: Length
2413 integer ,dimension(NVarDims) :: VDimIDs
2414 character(80),dimension(NVarDims) :: RODimNames
2415 integer ,dimension(NVarDims) :: StoredStart
2416 integer ,dimension(:,:,:,:),allocatable :: XField
2417 integer :: stat
2418 integer :: NVar
2419 integer :: i,j
2420 integer :: i1,i2,j1,j2,k1,k2
2421 integer :: x1,x2,y1,y2,z1,z2
2422 integer :: l1,l2,m1,m2,n1,n2
2423 integer :: XType
2424 integer :: di
2425 character (80) :: NullName
2426 logical :: NotFound
2427
Cheers,
b:)
----
Basit A. Khan, Ph.D.
Postdoctoral Research Fellow
Division of Physical Sciences & Engineering
Office# 3204, Level 3, Building 1,
King Abdullah University of Science & Technology
4700 King Abdullah Blvd, Box 2753, Thuwal 23955 6900,
Kingdom of Saudi Arabia.
Office: +966(0)12 808 0276, Mobile: +966(0)5 0860 3617
E-mail: basitali.khan at kaust.edu.sa
Skype name: basit.a.khan
On 6/4/14 4:58 PM, "Rob Latham" <robl at mcs.anl.gov> wrote:
>
>
>On 06/04/2014 01:55 AM, BasitAli Khan wrote:
>> Hi there,
>> I sent you the following email a a weak ago regarding pnetcdf make
>> check errors, but did not get response. I used this pnetcdf to compile
>> netCDF library 4.1.2. The pnetcdf was successfully linked and netCDF was
>> successfully compiled. I ran a WRF simulation which also was completed
>> successfully, however, the log file rsl.out.0000 (attached ) has several
>> (DRY RUN) errors that are originating from pnetCDF. I am wondering what
>> these errors are and would they be affecting my simulation in anyway?
>>
>> Thanks in advance and please do REPLY this email.
>
>Hello! sorry for the oversight. Here is my (list-only) reply from last
>week:
>
>http://lists.mcs.anl.gov/pipermail/parallel-netcdf/2014-May/001574.html
>
>Thanks for subscribing to the mailing list.
>
>There are folks using pnetcdf and WRF on Blue Gene. I don't know the
>details, but it apparently is possible. I think we can get you
>straightened out.
>
>When you see errors like this:
>
>/bin/sh: line 1: 6418 Illegal instruction ./nc_test -c -d .
>
>it means you are running back-end code on the login nodes. Blue Gene is
>a cross-compile environment: compute node codes cannot run on the login
>nodes. (well, technically they can... until they make a system call)
>
>what does line 2403 of wrf_io.f90 look like?
>
>==rob
>
>
>Hi Rob,
>>
>> Best regards,
>> b:)
>> ----
>>
>> Basit A. Khan, Ph.D.
>>
>> Postdoctoral Research Fellow
>>
>> Division of Physical Sciences & Engineering
>>
>> Office# 3204, Level 3, Building 1,
>>
>> King Abdullah University of Science & Technology
>>
>> 4700 King Abdullah Blvd, Box 2753, Thuwal 23955 6900,
>>
>> Kingdom of Saudi Arabia.
>>
>> Office: +966(0)12 808 0276, Mobile: +966(0)5 0860 3617
>>
>> E-mail: basitali.khan at kaust.edu.sa <mailto:basitali.khan at kaust.edu.sa>
>>
>> Skype name: basit.a.khan
>>
>> From: KAUST <basitali.khan at kaust.edu.sa
>><mailto:basitali.khan at kaust.edu.sa>>
>> Date: Wednesday, May 28, 2014 3:05 PM
>> To: "parallel-netcdf at mcs.anl.gov <mailto:parallel-netcdf at mcs.anl.gov>"
>> <parallel-netcdf at mcs.anl.gov <mailto:parallel-netcdf at mcs.anl.gov>>
>> Subject: pnetcdf test
>>
>> Hi there,
>> I am new to pnetcdf. I want to compile it for faster IO of WRF model on
>> our bluegeneP with Linux RedHat 10 on it. I apparently successfully
>> installed the latest version of pnetcdf 1.4.1, however when i run 'make
>> testing', i got few errors (log file attached). I would greatly
>> appreciate if you could have a look and advise where i am going wrong.
>>
>> The compilation of parallel netcdf created 4 directories. The contents
>> of these dir are as follows:
>>
>> /lib/libpnetcdf.a
>> /include/pnetcdf.h pnetcdf.inc pnetcdf.mod
>> /bin/ncmpidiff ncmpidump ncmpigen ncmpivalid
>> /man/man1/ncmpidiff.1 ncmpidump.1 ncmpigen.1 ncmpivalid.1
>> /man/man3/pnetcdf.3 pnetcdf_f77.3 pnetcdf_f90.3
>>
>>
>> Another question is that, do i have to do anything special to use it
>> with WRF?
>>
>> Thanks in advance and best regards,
>>
>>
>> b:)
>> ----
>>
>> Basit A. Khan, Ph.D.
>>
>> Postdoctoral Research Fellow
>>
>> Division of Physical Sciences & Engineering
>>
>> Office# 3204, Level 3, Building 1,
>>
>> King Abdullah University of Science & Technology
>>
>> 4700 King Abdullah Blvd, Box 2753, Thuwal 23955 6900,
>>
>> Kingdom of Saudi Arabia.
>>
>> Office: +966(0)12 808 0276, Mobile: +966(0)5 0860 3617
>>
>> E-mail: basitali.khan at kaust.edu.sa <mailto:basitali.khan at kaust.edu.sa>
>>
>> Skype name: basit.a.khan
>>
>> ------------------------------------------------------------------------
>>
>> This message and its contents including attachments are intended solely
>> for the original recipient. If you are not the intended recipient or
>> have received this message in error, please notify me immediately and
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>> printing this email.
>
>--
>Rob Latham
>Mathematics and Computer Science Division
>Argonne National Lab, IL USA
________________________________
This message and its contents including attachments are intended solely for the original recipient. If you are not the intended recipient or have received this message in error, please notify me immediately and delete this message from your computer system. Any unauthorized use or distribution is prohibited. Please consider the environment before printing this email.
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