[Wrf-users] Help running convert_emiss.exe in WRF-Chem 3.3.1
Creighton, Glenn A Civ USAF AFWA 16 WS/WXN
Glenn.Creighton at offutt.af.mil
Wed Jan 25 12:55:42 MST 2012
Hi Christopher,
It seems like you are having trouble reading /panfs/storage.local/met/fuelberg/cak10c/WRF/WRFV3/run/wrf_gocart_backg. The obvious first question is was this file correctly created in the previous step (prep_chem_sources)? It should be linked to a file like <name>-<date>-g1-gocartBG.bin, if you're following the methodology from the Tutorial included in the User's Guide. If it does exist and there are no permissions issues with the file (chmod 775 wrf_gocart_backg), then more information may be gathered by compiling with the -g -traceback options when compiling. (To do this, clean -a, configure, and then uncomment out the line in configure.wrf that looks like #-g -traceback -O0, and then recompile WRFCHEM). This will hopefully give you a line number in the code to which you might be better able to debug your problem. I have had issues with convert_emiss in the past, but I have never had this problem, so sorry if none of this helps.
Go Noles!
Glenn
-----Original Message-----
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Today's Topics:
1. installing PGf90 (reza sabri)
2. Re: installing PGf90 (Bart Brashers)
3. Help running convert_emiss.exe in WRF-Chem 3.3.1 (Chris Klich)
4. Re: installing PGf90 (Young, Jeremy, K)
5. Re: Netcdf problem (Dmitry N. Mikushin)
----------------------------------------------------------------------
Message: 1
Date: Wed, 25 Jan 2012 05:44:34 -0800 (PST)
From: reza sabri <rs_sabri at yahoo.com>
Subject: [Wrf-users] installing PGf90
To: "wrf-users at ucar.edu" <wrf-users at ucar.edu>
Message-ID:
<1327499074.42407.YahooMailNeo at web125505.mail.ne1.yahoo.com>
Content-Type: text/plain; charset="us-ascii"
Dear users,
I have trying to install PGF90 in my server and after installing Ive seen this message " please run makelocalrc to complete your installation"
Would you like please help me?
regards
reza
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Message: 2
Date: Wed, 25 Jan 2012 17:04:27 +0000
From: Bart Brashers <bbrashers at environcorp.com>
Subject: Re: [Wrf-users] installing PGf90
To: "wrf-users (wrf-users at ucar.edu)" <wrf-users at ucar.edu>
Cc: reza sabri <rs_sabri at yahoo.com>
Message-ID: <020B89C32F08C64FAACB3715A5495215437F688B at wcexs1>
Content-Type: text/plain; charset="us-ascii"
What's the output of the following command:
# locate makelocalrc
I think you'll find that it exists in $PGI/linux86-64/11.10/bin/. Your exact path might differ, based on which version ("11.10") of PGI you installed, and whether your platform is 64-bit or 32-bit ("-64"), and where you chose to install the compilers ($PGI might be /opt/pgi or /usr/local/pgi or something else).
Run it to create the correct resource ("rc") files to set environment variables.
Bart
From: wrf-users-bounces at ucar.edu [mailto:wrf-users-bounces at ucar.edu] On Behalf Of reza sabri
Sent: Wednesday, January 25, 2012 5:45 AM
To: wrf-users at ucar.edu
Subject: [Wrf-users] installing PGf90
Dear users,
I have trying to install PGF90 in my server and after installing Ive seen this message " please run makelocalrc to complete your installation"
Would you like please help me?
regards
reza
________________________________
This message contains information that may be confidential, privileged or otherwise protected by law from disclosure. It is intended for the exclusive use of the Addressee(s). Unless you are the addressee or authorized agent of the addressee, you may not review, copy, distribute or disclose to anyone the message or any information contained within. If you have received this message in error, please contact the sender by electronic reply to email at environcorp.com and immediately delete all copies of the message.
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Message: 3
Date: Tue, 24 Jan 2012 15:09:35 -0500
From: Chris Klich <caklich at gmail.com>
Subject: [Wrf-users] Help running convert_emiss.exe in WRF-Chem 3.3.1
To: wrf-users <wrf-users at ucar.edu>
Message-ID:
<CABnjn+v-1BW6kjBLoG4KR9BvxUtyjQ3_vhTUYLaJ-0xFHApiXA at mail.gmail.com>
Content-Type: text/plain; charset=ISO-8859-1
Hi all, I am trying to run convert_emiss in WRF-Chem 3.3.1 after
preparing global emissions for my run using prep_chem_sources. First,
I have only gotten convert_emiss to compile with Intel and not PGI
compilers, even with the fixes on the WRF-Chem page, has anyone else
had similar problems?
Also, after building emissions using prep_chem_sources (V 1.2.1) and
running convert_emiss, I am receiving the error:
READ GOCART BACKGROUND DATA
forrtl: severe (39): error during read, unit 19, file
/panfs/storage.local/met/fuelberg/cak10c/WRF/WRFV3/run/wrf_gocart_backg
Image PC Routine Line
Source
convert_emiss.exe 0000000001ED115A Unknown Unknown Unknown
convert_emiss.exe 0000000001ECFCD5 Unknown Unknown Unknown
convert_emiss.exe 0000000001E77FE6 Unknown Unknown Unknown
convert_emiss.exe 0000000001E191E5 Unknown Unknown Unknown
convert_emiss.exe 0000000001E189A1 Unknown Unknown Unknown
convert_emiss.exe 0000000001E3ACF4 Unknown Unknown Unknown
convert_emiss.exe 00000000004E0308 Unknown Unknown Unknown
convert_emiss.exe 00000000004D654C Unknown Unknown Unknown
libc.so.6 00000038AA61ECDD Unknown Unknown Unknown
convert_emiss.exe 00000000004D6449 Unknown Unknown Unknown
I have done all the changes and known problem fixes on the WRF-Chem
website to the best of my knowledge. It seems they should fix all of
my problems, but I am getting the same errors with or without the
changes. I cleaned the compilation, made changes, and recompiled.
Does anyone have ideas as to how I can fix my problem or what I may be
doing wrong?
Thank you.
--
Christopher Klich
Graduate Student
Florida State University
(908) 208-9743
------------------------------
Message: 4
Date: Wed, 25 Jan 2012 14:11:51 +0000
From: "Young, Jeremy, K" <jeremy.young868 at topper.wku.edu>
Subject: Re: [Wrf-users] installing PGf90
To: "wrf-users at ucar.edu" <wrf-users at ucar.edu>
Message-ID:
<50C0D80B700AFB4597C07F946592F09728674EEC at CH1PRD0310MB355.namprd03.prod.outlook.com>
Content-Type: text/plain; charset="us-ascii"
Hi Reza,
Are you seeing this message on the server you're trying to install the license on or are you seeing this on machines that will access the license from the server?
You shouldn't need to run makelocalrc directly because the install script should do this for you. Try running the following commands from a terminal, and then rerun the install script to see if this helps.
su
[root password]
yum install gcc gcc-c++ gcc-gfortran
cd [your pgi directory]
./install
PGI depends on the gcc libraries, so it's possible that this may be your problem. I hope this helps.
Jeremy Young
________________________________________
From: wrf-users-bounces at ucar.edu [wrf-users-bounces at ucar.edu] on behalf of reza sabri [rs_sabri at yahoo.com]
Sent: Wednesday, January 25, 2012 7:44 AM
To: wrf-users at ucar.edu
Subject: [Wrf-users] installing PGf90
Dear users,
I have trying to install PGF90 in my server and after installing Ive seen this message " please run makelocalrc to complete your installation"
Would you like please help me?
regards
reza
------------------------------
Message: 5
Date: Thu, 19 Jan 2012 19:40:58 +0100
From: "Dmitry N. Mikushin" <maemarcus at gmail.com>
Subject: Re: [Wrf-users] Netcdf problem
To: Bart Brashers <bbrashers at environcorp.com>
Cc: Ehsan Beigi <ebeigi3 at tigers.lsu.edu>, "wrf-users
\(wrf-users at ucar.edu\)" <wrf-users at ucar.edu>
Message-ID:
<CAGR4S9EkomQ9edpwW2vzmhTuosoJBrj2vSJxSwVeyLpsN4eUrw at mail.gmail.com>
Content-Type: text/plain; charset=windows-1252
Hi,
Actually libimf, libsvml and libintlc are libraries distributed
together with Intel Compiler. So, you should look for them in your
Intel Compiler distribution, and set proper path for dynamic load, for
example:
$ export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/path/to/intel/stuff
Also this tells that your netCDF was compiled by Intel, that is the
default: if netCDF configure script is able to find Intel Compiler,
than it is used as a first priority. Is it intentional for you?
And regarding other errors about missing functions you should check
the Fortran name mangling rule: make sure netCDF library really
provides names with "_" in the end (the default for Fortran). Example:
$ nm <netcdf_library_name> | grep nf_open_
$ nm <netcdf_library_name> | grep nf_open
My guess is library contains functions without "_" by some reason.
HTH,
- Dima.
2012/1/19 Bart Brashers <bbrashers at environcorp.com>:
> Try the following, as root:
>
>
>
> # yum search libimf
>
> # yum search libsvml
>
> # yum search libintlc
>
>
>
> If you find some package that provides those libraries, you can ?yum install
> <package_name>? returned by the search.
>
>
>
> Did you perhaps install a pre-compiled version of NetCDF?? It?s important
> (easiest) to use the same compiler for all components of WRF.
>
>
>
> Bart
>
>
>
> From: wrf-users-bounces at ucar.edu [mailto:wrf-users-bounces at ucar.edu] On
> Behalf Of Ehsan Beigi
> Sent: Tuesday, January 17, 2012 9:59 PM
> To: wrfhelp; wrf-users at ucar.edu
> Subject: [Wrf-users] Netcdf problem
>
>
>
> Dear Sir/Madam,
>
> as you know , WRF is the most important library for WRF. I am trying to
> install netcdf on Redhat 6 (2.6.32-220.2.1.el6.x86_64) and , i think there
> is problem withing intel fortran compiler and netcdf interface, because i
> got below error message: how could i solve this problem, any help will be
> appreciated in advance
>
> Compiler configuration problem encountered.? Compiler cannot load imf
> dispatching library.
> ld: warning: libimf.so, needed by /usr/local/lib/libnetcdf.so, not found
> (try using -rpath or -rpath-link)
> ld: warning: libsvml.so, needed by /usr/local/lib/libnetcdf.so, not found
> (try using -rpath or -rpath-link)
> ld: warning: libintlc.so.5, needed by /usr/local/lib/libnetcdf.so, not found
> (try using -rpath or -rpath-link)
> CAM_netcdf_to_WRF_intermediate_EHS.o: In function
> `read_netcdf_cam_and_clm_files_':
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x760b): undefined reference
> to `nf_open_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x767e): undefined reference
> to `nf_inq_varid_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x76a0): undefined reference
> to `nf_inq_varid_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x76c2): undefined reference
> to `nf_inq_varid_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x76e4): undefined reference
> to `nf_inq_varid_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x7706): undefined reference
> to `nf_inq_varid_'
> CAM_netcdf_to_WRF_intermediate_EHS.o:CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x7728):
> more undefined references to `nf_inq_varid_' follow
> CAM_netcdf_to_WRF_intermediate_EHS.o: In function
> `read_netcdf_cam_and_clm_files_':
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x7db9): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x7de3): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x7fe9): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x8019): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x813e): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x8168): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x836e): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x839e): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x876d): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x8806): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x89f0): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x8a59): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x91d7): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x926e): undefined reference
> to `nf_inq_attlen_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x9455): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x94bd): undefined reference
> to `nf_get_att_text_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xa31a): undefined reference
> to `nf_get_var_double_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xa3c3): undefined reference
> to `nf_get_var_double_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xa614): undefined reference
> to `nf_get_var_real_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xb17f): undefined reference
> to `nf_get_var_real_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xd4a7): undefined reference
> to `nf_get_var_double_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xd4c6): undefined reference
> to `nf_get_var_double_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xd4e2): undefined reference
> to `nf_get_var_double_'
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0xe741): undefined reference
> to `nf_close_'
> CAM_netcdf_to_WRF_intermediate_EHS.o: In function `handle_err_':
> CAM_netcdf_to_WRF_intermediate_EHS.f90:(.text+0x11007): undefined reference
> to `nf_strerror_'
> ./Runit: line 4: ./a.out: No such file or directory
>
>
> --
> Ehsan Beigi
> PhD Student
> Department of Civil and and Environmental Engineering
> 2408 Patrick F. Taylor Hall
> Louisiana State University
> Baton Rouge, LA, 70803
>
>
> ________________________________
> This message contains information that may be confidential, privileged or
> otherwise protected by law from disclosure. It is intended for the exclusive
> use of the Addressee(s). Unless you are the addressee or authorized agent of
> the addressee, you may not review, copy, distribute or disclose to anyone
> the message or any information contained within. If you have received this
> message in error, please contact the sender by electronic reply to
> email at environcorp.com and immediately delete all copies of the message.
>
> _______________________________________________
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