geogrid.exe: problem

All things involving the setup (compiling, NetCDF, etc.) of the WRF Model itself.

geogrid.exe: problem

Postby sahidul » Thu Jul 22, 2010 3:12 am

Dear WRF help,

I am facing problem to create domain. When I am running "geogrid.exe" following errors are showing.
=================================================
[sahidul@ WPS]$ ./geogrid.exe
[0] MPI startup(): DAPL provider OpenIB-mlx4_0-1
[0] MPI startup(): RDMA, shared memory, and socket data transfer modes
[0] Rank Pid Pin cpu Node name
[0] 0 26258 n/a yc2.cn.yuva.param
[0] Init(): I_MPI_ADJUST_ALLGATHER=0
[0] Init(): I_MPI_CACHE_BYPASS_THRESHOLDS=16384,16384,16384,16384,16384,16384
[0] Init(): I_MPI_DEBUG=5
[0] Init(): I_MPI_DEVICE=rdssm
[0] Init(): I_MPI_DYNAMIC_CONNECTION=0
[0] Init(): I_MPI_FAIR_READ_SPIN_COUNT=100000000
[0] Init(): I_MPI_FALLBACK_DEVICE=disable
[0] Init(): I_MPI_RDMA_BUFFER_NUM=24
[0] Init(): I_MPI_RDMA_BUFFER_SIZE=8256
[0] Init(): I_MPI_RDMA_MAX_MSG_SIZE=1048576
[0] Init(): I_MPI_RDMA_READ_MAX_NUM=2
[0] Init(): I_MPI_RDMA_RECV_QUEUE_SIZE=0
[0] Init(): I_MPI_RDMA_REQUEST_QUEUE_SIZE=80
[0] Init(): I_MPI_RDMA_RNDV_BUFFER_ALIGNMENT=256
[0] Init(): I_MPI_RDMA_RNDV_WRITE=on
[0] Init(): I_MPI_RDMA_SCALABLE_PROGRESS=1
[0] Init(): I_MPI_RDMA_TRANSLATION_CACHE=1
[0] Init(): I_MPI_RDMA_TRANSLATION_CACHE_MAX_MEMORY_SIZE=131072
[0] Init(): I_MPI_SPIN_COUNT=100000000
[0] Init(): I_MPI_USE_DYNAMIC_CONNECTIONS=0
[0] Init(): RDMA_DEFAULT_MAX_CQ_SIZE=32768
[0] Init(): RDMA_READ_RESERVE=16
Parsed 21 entries in GEOGRID.TBL
ERROR: In GEOGRID.TBL, for index file of data at entry 7, category_max is specified, but category_min is not. Both must be specified.
[unset]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 0) - process 0
=================================================

Kindly help me to sort out this problem

Thanking you,

Sahidul
sahidul
 
Posts: 35
Joined: Wed Apr 30, 2008 1:46 am

Re: geogrid.exe: problem

Postby dbh409 » Fri Jul 23, 2010 12:14 pm

Sahidul,

Can you please attach your GEOGRID.TBL file?

Dave
dbh409
 
Posts: 89
Joined: Wed Mar 24, 2010 11:46 am

Re: geogrid.exe: problem

Postby sahidul » Fri Jul 23, 2010 1:06 pm

I am not able to attach GEOGRID.TBL file. I copied and pasted below

- - -- - -- - -START of GEOGRID.TBL - --- ---------- ---
# See options.txt for a (somewhat up to date) list of the
# options that may be specified here.
===============================
name = CON
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/con/
rel_path = 10m:orogwd_10m/con/
rel_path = 20m:orogwd_20m/con/
rel_path = 30m:orogwd_30m/con/
rel_path = 1deg:orogwd_1deg/con/
rel_path = 2deg:orogwd_2deg/con/
===============================
name = VAR
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/var/
rel_path = 10m:orogwd_10m/var/
rel_path = 20m:orogwd_20m/var/
rel_path = 30m:orogwd_30m/var/
rel_path = 1deg:orogwd_1deg/var/
rel_path = 2deg:orogwd_2deg/var/
===============================
name = OA1
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/oa1/
rel_path = 10m:orogwd_10m/oa1/
rel_path = 20m:orogwd_20m/oa1/
rel_path = 30m:orogwd_30m/oa1/
rel_path = 1deg:orogwd_1deg/oa1/
rel_path = 2deg:orogwd_2deg/oa1/
===============================
name = OA2
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/oa2/
rel_path = 10m:orogwd_10m/oa2/
rel_path = 20m:orogwd_20m/oa2/
rel_path = 30m:orogwd_30m/oa2/
rel_path = 1deg:orogwd_1deg/oa2/
rel_path = 2deg:orogwd_2deg/oa2/
===============================
name = OA3
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/oa3/
rel_path = 10m:orogwd_10m/oa3/
rel_path = 20m:orogwd_20m/oa3/
rel_path = 30m:orogwd_30m/oa3/
rel_path = 1deg:orogwd_1deg/oa3/
rel_path = 2deg:orogwd_2deg/oa3/
===============================
name = OA4
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/oa4/
rel_path = 10m:orogwd_10m/oa4/
rel_path = 20m:orogwd_20m/oa4/
rel_path = 30m:orogwd_30m/oa4/
rel_path = 1deg:orogwd_1deg/oa4/
rel_path = 2deg:orogwd_2deg/oa4/
===============================
name = OL1
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/ol1/
rel_path = 10m:orogwd_10m/ol1/
rel_path = 20m:orogwd_20m/ol1/
rel_path = 30m:orogwd_30m/ol1/
rel_path = 1deg:orogwd_1deg/ol1/
rel_path = 2deg:orogwd_2deg/ol1/
===============================
name = OL2
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/ol2/
rel_path = 10m:orogwd_10m/ol2/
rel_path = 20m:orogwd_20m/ol2/
rel_path = 30m:orogwd_30m/ol2/
rel_path = 1deg:orogwd_1deg/ol2/
rel_path = 2deg:orogwd_2deg/ol2/
===============================
name = OL3
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/ol3/
rel_path = 10m:orogwd_10m/ol3/
rel_path = 20m:orogwd_20m/ol3/
rel_path = 30m:orogwd_30m/ol3/
rel_path = 1deg:orogwd_1deg/ol3/
rel_path = 2deg:orogwd_2deg/ol3/
===============================
name = OL4
priority = 1
dest_type = continuous
masked=water
fill_missing=0.
interp_option = default:average_4pt
interp_option = 10m:average_4pt
interp_option = 20m:average_4pt
interp_option = 30m:average_4pt
interp_option = 1deg:average_4pt
interp_option = 2deg:average_4pt
rel_path = default:orogwd_10m/ol4/
rel_path = 10m:orogwd_10m/ol4/
rel_path = 20m:orogwd_20m/ol4/
rel_path = 30m:orogwd_30m/ol4/
rel_path = 1deg:orogwd_1deg/ol4/
rel_path = 2deg:orogwd_2deg/ol4/
===============================
name = HGT_M
priority = 1
dest_type = continuous
df_dx=SLPX
df_dy=SLPY
smooth_option = smth-desmth_special; smooth_passes=1
fill_missing=0.
interp_option = 30s:average_gcell(4.0)+four_pt+average_4pt
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
rel_path= 30s:topo_30s/
rel_path= 2m:topo_2m/
rel_path= 5m:topo_5m/
rel_path= 10m:topo_10m/
rel_path= default:topo_2m/
===============================
name = HGT_U
output_stagger = U
priority = 1
dest_type = continuous
interp_option = 30s:average_gcell(4.0)+four_pt+average_4pt
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
smooth_option = smth-desmth_special; smooth_passes=1
fill_missing=0.
rel_path= 30s:topo_30s/
rel_path= 2m:topo_2m/
rel_path= 5m:topo_5m/
rel_path= 10m:topo_10m/
rel_path= default:topo_2m/
===============================
name = HGT_V
output_stagger = V
priority = 1
dest_type = continuous
interp_option = 30s:average_gcell(4.0)+four_pt+average_4pt
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
smooth_option = smth-desmth_special; smooth_passes=1
fill_missing=0.
rel_path= 30s:topo_30s/
rel_path= 2m:topo_2m/
rel_path= 5m:topo_5m/
rel_path= 10m:topo_10m/
rel_path= default:topo_2m/
===============================
name=LANDUSEF
priority=1
dest_type=categorical
z_dim_name=land_cat
landmask_water = modis_30s:17 # Calculate a landmask from this field
landmask_water = default:16 # Calculate a landmask from this field
dominant=LU_INDEX
interp_option = modis_30s:nearest_neighbor
interp_option = 30s:nearest_neighbor
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
rel_path= modis_30s:modis_landuse_20class_30s/
rel_path= 30s:landuse_30s/
rel_path= 2m:landuse_2m/
rel_path= 5m:landuse_5m/
rel_path= 10m:landuse_10m/
rel_path= default:landuse_2m/
===============================
name=SOILTEMP
priority=1
dest_type=continuous
interp_option=default:sixteen_pt+four_pt+average_4pt+average_16pt+search
masked=water
fill_missing=0.
rel_path=default:soiltemp_1deg/
===============================
name=SOILCTOP
priority=1
dest_type=categorical
z_dim_name=soil_cat
interp_option = 30s:nearest_neighbor
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
rel_path= 30s:soiltype_top_30s/
rel_path= 2m:soiltype_top_2m/
rel_path= 5m:soiltype_top_5m/
rel_path= 10m:soiltype_top_10m/
rel_path= default:soiltype_top_2m/
===============================
name=SOILCBOT
priority=1
dest_type=categorical
z_dim_name=soil_cat
interp_option = 30s:nearest_neighbor
interp_option = 2m:four_pt
interp_option = 5m:four_pt
interp_option = 10m:four_pt
interp_option = default:four_pt
rel_path= 30s:soiltype_bot_30s/
rel_path= 2m:soiltype_bot_2m/
rel_path= 5m:soiltype_bot_5m/
rel_path= 10m:soiltype_bot_10m/
rel_path= default:soiltype_bot_2m/
===============================
name=ALBEDO12M
priority=1
dest_type=continuous
z_dim_name=month
masked = water
fill_missing = 8.
interp_option=default:four_pt+average_4pt+average_16pt+search
rel_path=default:albedo_ncep/
===============================
name=GREENFRAC
priority=1
dest_type=continuous
interp_option=default:four_pt+average_4pt+average_16pt+search
z_dim_name=month
masked = water
fill_missing = 0.
rel_path=default:greenfrac/
===============================
name=SNOALB
priority=1
dest_type=continuous
interp_option=default:four_pt+average_4pt+average_16pt+search
masked = water
fill_missing = 0.
rel_path=default:maxsnowalb/
===============================
name=SLOPECAT
priority=1
dominant_only=SLOPECAT
dest_type=categorical
z_dim_name=slope_cat
masked = water
fill_missing = 0.
interp_option=default:nearest_neighbor+average_16pt+search
rel_path=default:islope/
===============================
--------------END of GEOGRID.TBL-----------------------
sahidul
 
Posts: 35
Joined: Wed Apr 30, 2008 1:46 am

Re: geogrid.exe: problem

Postby rsyed » Mon Aug 02, 2010 11:35 am

Hi,

I also encountered this problem and through a fluke, I found that the solution was to turn off Intel MPI debugging.

That is, when I had I_MPI_DEBUG set to 9 I encountered the exact same error you did. Only when I unset that variable did things work. I didn't bother trying lower debug levels yet though, but this is an issue that either the WRF team or Intel team would probably need to debug further.

I'm using Intel MPI 4.0.0.025

-Rahman
rsyed
 
Posts: 1
Joined: Mon Aug 02, 2010 11:32 am


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