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10 Post Processing
A completed run of CCSM3.0 will produce a large number of files, each
with many variables. Post processing these files presents several
unique challenges. Various techniques and tools have been developed to
meet these challenges. Most involve software that does accompany the
CCSM3 distribution. The user will have to download and install these
tools separately.
In the following sections, some of these tools will be described and their
download location identified. Follow on sections will demonstrate various
techniques using these tools.
10.1 Software Overview
The netCDF Operators are command line executables specifically designed for
multi-file bulk processing. They are free, run on numerous operating systems,
and are essential in reducing the number of CCSM files to a manageable
level. While not officially supported, they are widely used and easy to
learn. The operators and on line user's manual can be found at:
nco.sourceforge.net
Table 7 lists the operators and gives a brief description. The
user is directed to the web page listed above for specific details,
limitations, and usage.
Table 7:
netCDF Operators
Operator Name |
Function |
|
ncap |
arithmetic processor |
|
ncatted |
attribute editor |
|
ncbo |
binary operator (add, subtract, multiply, divide) |
|
ncea |
ensemble averager |
|
ncecat |
ensemble concatinator |
|
ncflint |
file interpolator |
|
ncks |
kitchen sick (variable extraction) |
|
ncra |
record averager |
|
ncrcat |
record concatinator |
|
ncrename |
renamer |
|
ncwa |
weighted averager |
|
Specific examples of these operators exist in sections 10.2.1 and
10.2.2.
10.1.2 The NCAR Command Language (NCL)
NCL is a free, interpreted computer language developed at NCAR. It is highly
suited to meteorological and climatological data processing and visualization.
It runs on UNIX, AIX, IRIX, LINUX, MACOS X, and Windows under cygwin. It
handles netCDF, GRIB, and HDF data formats with ease and is officially
supported. The following web site contains a large on line library of
graphical and data processing scripts that can be downloaded and applied:
www.cesm.ucar.edu/support/
Questions about the software
should be directed to ncl-talk@ucar.edu or to Sylvia Murphy
(murphys@ucar.edu). NCL exists on all NCAR supercomputers
and CGD systems. It can be also be downloaded at:
ngwww.ucar.edu/ncl/download.html
Questions about the NCL binaries and their installing should be directed
to Mary Haley (haley@ucar.edu) of the Scientific Computing
Division.
CMPS is similar in functionality to the netCDF operators (see section
10.1). They are command line executables that are available on NCAR's
supercomputers. Unlike the NCO, CMPS only works with CCSM model data.
An on line user's guide is available at:
www.cesm.ucar.edu/support/FH/CMPS/index.shtml.
Table 8 lists the current operators and gives a brief
description of their function. CMPS is officially supported. The user is
advised to visit the web page above or contact Sylvia Murphy
(murphys@ucar.edu) for more information and specific usage.
Table 8:
Component Model Processing Suite
Operator Name |
Function |
|
add.scp |
addition |
|
diff.scp |
difference/anomalies |
|
e2d.scp |
extract all 2D variables |
|
esvc.scp |
extract selected variables and concatenate |
|
have.scp |
horizontal averaging |
|
iso.scp |
iso-level extraction |
|
iso_interp.scp |
interpolation of a variable to an iso surface |
|
mult.scp |
multiplication |
|
rmse.scp |
RMSE |
|
subext.scp |
sub-region extraction |
|
tsext.scp |
time series extraction |
|
ttest.scp |
t-test |
|
topbot.scp |
single level extraction |
|
trans.scp |
transects |
|
vert.scp |
vertical averaging |
|
volave.scp |
volume averaging |
|
vert.scp |
vertical averaging |
|
zave.scp |
zonal averaging |
|
Comprehensive diagnostic packages exist for each model component. Not all are
publicly available. CCSM3 diagnostic packages are designed to do
bulk file processing (e.g. concatenate files and average using the
NCO), conduct the necessary data processing, and output NCL graphics in a web
format. Table 9 contains a list of the currently available
packages, their point of contact, and download location.
People who run the CCSM use many commercial tools for post processing. These
can include IDL, Fortran, MatLab, Yorick, and Vis5D. These are mentioned for
information only. Use of these tools is not supported, and it is up to the
user to download, install, and debug their own programs.
There is no way this guide can provide a detailed set of instructions for all
of the post-processing tasks a typical CCSM3.O run requires. What follows is
a short discussion of some of the more common tasks.
10.2.1 Selected Variable File Concatenation
CCSM output consists of many files each containing many variables. Often
researchers are only interested in a subset of those variables. One strategy
for file management is to extract the variables of interest and concatenate
them into a smaller subset of files. The netCDF operators
(see section 10.1) are well suited to this task. The following is a
code snippet from a c-shell script that uses ncks to
extract the selected variables T,U, and V and then uses ncrcat
to combine the files together.
#**************************************
# extract variables using ncks
#**************************************
ls *.nc > file.txt # get the list of files
set fnlst = `cat file.txt`
foreach x ($fnlst) # loop over each file
ncks -A -h -v T,U,V $x temp_$x # extract variables to temp file
end
#**************************************
# concatinate variables with ncrcat
#**************************************
ncrcat -A -h temp_*.nc concatinated.nc # concatinate all temp files together
#**************************************
10.2.2 Creating Climatologies
Climatologies can be created using the netCDF operators (see section
10.1) or NCL (see section 10.1.2). The code snippet below
demonstrates the use of ncra to create annual averages for a
set of years using monthly data for those years. ncra
is then used again to average the annual averages to create an annual
climatology.
#*********************************************************
# CALC YEARLY ANNUAL AVERAGES FROM MONTHLY DATA
#*********************************************************
@ yr_cnt = $yr_strt # create year counter
@ yr_end = $yr_strt + $num_yrs - 1 # put space btwn "-" and "1"
while ( $yr_cnt <= $yr_end ) # loop over years
set yr_prnt = `printf "%04d" {$yr_cnt}` # format(change as required)
ls ${DIR}${case}_${yr_prnt}*.nc > file.txt # get list of files
set files = `cat file.txt`
ncra -O $files ${DIR}${case}_${yr_prnt}_ann.nc # create annual average
end while
#*********************************************************
# CREATE CLIMATOLOGICAL ANNUAL AVERAGES
#*********************************************************
ls ${DIR}${case}*ann.nc > file.txt # get list of ann average
set files = `cat file.txt`
ncra -O $files ${DIR}${case}_ANN_climo.nc # create climatological avg
#*********************************************************
There is a web page devoted to creating climatologies using NCL
www.ncl.ucar.edu/Applications/climo.shtml
This page demonstrates just a few of the climatological related functions
available. For a full list, see
www.ncl.ucar.edu/Document/Functions/climo.shtml
The atmospheric model output is on hybrid coordinates (see the User's
Guide to the NCAR Community Atmosphere Model 3.0 (CAM 3.0) for
details). Often it is desirable to convert these to pressure
coordinates. The following web page demonstrates this conversion
using NCL (see section 10.1.2):
www.ncl.ucar.edu/Applications/vert.shtml
A special NCL (see section 10.1) library script
(pop_remap.ncl) has been developed for POP remapping.
This library script comes with the NCL distribution. In order to remap POP,
special POP weight and grid files are necessary. SCRIP, which
was developed at Los Alamos National Labs, is used to create these files.
NCAR maintains a repository of grid and weight files for model configurations
that have been scientifically validated (see section 1.5). If a
map or weight file for one of these validated configurations is desired,
contact Sylvia Murphy (murphys@ucar.edu ) to have the files placed
on an anonymous ftp server. The following web site describes how to use
pop_remap.ncl and NCL to create other POP graphics:
www.cesm.ucar.edu/support/CSM_Graphics/pop.shtml
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