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1. Environment installation
For the steps before netcdf, please refer to the previous blog post
https://blog.csdn.net/weixin_43934886/article/details/130197311?spm=1001.2014.3001.5501
1. netcdf-4.8.1 installation
It is recommended to install netcdf-C above 4.8.1, fortran version netcdf can choose above 4.5
First download and decompress
wget https://downloads.unidata.ucar.edu/netcdf-c/4.8.1/src/netcdf-c-4.8.1.tar.gz
tar -zxvf netcdf-c-4.8.1.tar.gz
cd netcdf-c-4.8.1.tar.gz
Next configure it
./configure --prefix=/path/to/NETCDF CPPFLAGS="-I/path/to/HDF5/include" LDFLAGS="-L/path/to/HDF5/lib" --enable-fortran --enable-static=yes --enable-parallel --enable-shared CFLAGS="-O3 -fPIC -Wno-incompatible-pointer-types-discards-qualifiers -Wno-non-literal-conversion" FCFLAGS="-O3 -fPIC" LDFLAGS="-Wl,--build-id" --enable-fortran --enable-netcdf4 --enable-parallel CC=mpicc FC=mpif90 CXX=mpicxx
Compile and install
make && make install
Remember to modify the environment variables after the installation is complete
export PATH=/path/to/NETCDF/bin:$PATH
export LD_LIBRARY_PATH=/path/to/NETCDF/lib:$LD_LIBRARY_PATH
check for success
nc-config --all
The following result should appear
2.netcdf-fortran-4.5.3
Download and decompress first
wget https://downloads.unidata.ucar.edu/netcdf-fortran/4.5.3/netcdf-fortran-4.5.3.tar.gz
tar -zxvf netcdf-fortran-4.5.3.tar.gz
cd netcdf-fortran-4.5.3
Then configure it
./configure --prefix=/path/to/NETCDF CPPFLAGS="-I/path/to/HDF5/include -I/path/to/NETCDF/include" LDFLAGS=" -L/path/to/HDF5/lib -L/path/to/NETCDF/lib -lnetcdf" --enable-fortran --enable-static=yes --enable-parallel --enable-shared CFLAGS="-O3 -fPIC -Wno-incompa tible-pointer-types-discards-qualifiers -Wno-non-literal-conversion" FCFLAGS="-O3 -fPIC" LDFLAGS="-Wl,--build-id" --en able-fortran --enable-netcdf4 --enable-parallel CC=mpicc FC=mpif90 CXX=mpicxx F77=mpif77
*Note that you must remember to specify the compiler of F77 as mpif77, and the installation path should be consistent with that of netcdf-C
Compile and install
make && make install
Check to see if the installation was successful
nf-config --all
3.Lapack 3.8.0
download and unzip
wget http://www.netlib.org/lapack/lapack-3.8.0.tar.gz
tar -zxvf lapack-3.8.0.tar.gz
cd lapack-3.8.0
Compile:
cp make.inc.example make.inc
make
Copy the library files to a unified environment directory
cp *.a /path/to/lapack
4.BLAS
download and unzip
wget http://www.netlib.org/blas/blas-3.8.0.tgz
tar -zxvf blas-3.8.0.tgz
cd blas-3.8.0
Compile:
cp make.inc.example make.inc
make
Copy the library files to a unified environment directory
cp blas_LINUX.a /path/to/BLAS/libblas.a
2. Example creation and configuration
1. File configuration
Enter the example directory
cd .../my_cesm_sandbox/
There are several files:
enter cime
cd cime
Modify the machine configuration file
vim ./config/cesm/machines/config_machines.xml
Add the following content in the blank space: (the content marked in blue is –mach, which can be customized)
<machine MACH="User">
<DESC>
good luck~
</DESC>
<NODENAME_REGEX>regex.expression.matching.your.machine</NODENAME_REGEX>
<OS>LINUX</OS>
<PROXY> https://howto.get.out </PROXY>
<COMPILERS>pgi</COMPILERS>
<MPILIBS>openmpi</MPILIBS>
<PROJECT>none</PROJECT>
<SAVE_TIMING_DIR> </SAVE_TIMING_DIR>
<CIME_OUTPUT_ROOT>/path/to/output/CESM/output-2.0/scratch</CIME_OUTPUT_ROOT>
<! -- 这是输出文件目录，包括输出结果，之后标黄的都是 -->
<DIN_LOC_ROOT>/path/to/input</DIN_LOC_ROOT>
<!-- 这是输入文件目录，主要用于存放需要的输入数据，之后标绿的都是 -->
<DIN_LOC_ROOT_CLMFORC>/CESMroot/CESM/INPUTDAT/inputdata/lmwg</DIN_LOC_ROOT_CLMFORC>
<DOUT_S_ROOT>/path/to/output/output-2.0/archive/$CASE</DOUT_S_ROOT>
<BASELINE_ROOT>/path/baseline/cesm_baselines2.0</BASELINE_ROOT>
<CCSM_CPRNC>...../my_cesm_sandbox/cime/tools/cprnc</CCSM_CPRNC>
<!-- 这是性能工具，可有可无 -->
<GMAKE>make</GMAKE>
<GMAKE_J>4</GMAKE_J>
<BATCH_SYSTEM>none</BATCH_SYSTEM>
<SUPPORTED_BY>xzw~</SUPPORTED_BY>
<!-- 这是我哈哈哈 -->
<MAX_TASKS_PER_NODE>8</MAX_TASKS_PER_NODE>
<MAX_MPITASKS_PER_NODE>8</MAX_MPITASKS_PER_NODE>
<PROJECT_REQUIRED>FALSE</PROJECT_REQUIRED>
<mpirun mpilib="default">
<executable>mpirun</executable>
<arguments>
<arg name="ntasks"> -np {
{
total_tasks }} </arg>
</arguments>
</mpirun>
<module_system type="none">
</module_system>
<environment_variables>
<env name="OMP_STACKSIZE">512M</env>
</environment_variables>
<resource_limits>
<resource name="RLIMIT_STACK">-1</resource>
</resource_limits>
</machine>
2. Create a calculation example and run it
Enter the scripts directory and create a calculation example
./create_newcase --case Xtest --res f19_g16 --compset X --mach User
cd Xtest
initialization study
./case.setup
After initialization, open Macros.make
Clear the original content and change it to the following content: (The place marked in blue is the directory where you need to pay attention to the software installation)
ifeq ($(COMPILER),gnu)
CPPDEFS := $(CPPDEFS) -DFORTRANUNDERSCORE -DNO_R16 -DNO_SHR_VMATH -DCPRPGI
FC_AUTO_R8 := -fdefault-real-8
HAS_F2008_CONTIGUOUS := FALSE
FFLAGS_NOOPT := -O0
LDFLAGS := -Wl,--allow-multiple-definition -L/path/to/BLAS/lib -lblas
SUPPORTS_CXX := TRUE
CFLAGS += -O2 -g
FFLAGS := -O2 -g -fconvert=big-endian -ffixed-line-length-132 -Kieee -Mextend -byteswapio -Mflushz
FIXEDFLAGS := -Mfixed
SCC := clang
SFC := flang
MPICC := mpicc
MPIFC := mpif90
MPICXX := mpicxx
FREEFLAGS := -Mfreeform
CXX_LINKER := FORTRAN
SCXX := clang++
NETCDF_PATH := /path/to/netcdf
endif
ifeq ($(MODEL),pop)
CPPDEFS := $(CPPDEFS) -D_USE_FLOW_CONTROL
endif
ifeq ($(COMPILER),gnu)
ifeq ($(compile_threaded),true)
FFLAGS := $(FFLAGS) -mp
CFLAGS := $(CFLAGS) -mp
endif
ifeq ($(DEBUG),TRUE)
FFLAGS := $(FFLAGS) -g -fbounds-check
CFLAGS := $(CFLAGS) -g -fbounds-check
endif
ifeq ($(DEBUG),FALSE)
FFLAGS := $(FFLAGS) -O
CFLAGS := $(CFLAGS) -O
endif
ifeq ($(compile_threaded),true)
LDFLAGS := $(LDFLAGS) -mp
endif
endif
After saving and exiting, submit and compile
./case.build
Wait for the compilation to complete. If there is a problem with the compilation, you need to recompile first. ./case.build --clean-all
After ./case.build
the compilation is completed, it will prompt sucess (as shown in the figure)
Submit to run
./case.submit
Wait for the operation to complete (as shown in the figure below)
Summarize
The above is the summary of the transplantation method of cesm2.1.3 version. The source code can be directly checked from the official cesm, or downloaded from Baidu Netdisk.
Link: https://pan.baidu.com/s/14unOhxSJKq4MrSnEht_obQ?pwd=h3bc
Code: h3bc
input data will be downloaded automatically after compiling, friends with slow internet speed need to be patient~ If it doesn’t work, download directly from here
Link: https://pan.baidu.com/s/1Kxx-A5xXVoKrc2IL3VA3vw?pwd =b6ez
extraction code: b6ez