ubuntu18.04编译安装flexpart10.4（2023年）——筑梦之路

2023年10月29日 环境说明

操作系统版本：ubuntu  18.04

python版本：3.6.9

gcc版本：7.5.0

编译安装路径：/usr/local

cmake: 3.10.2

所需要的源码包我已经打包放到我的资源。

2021年1月份已经写过一篇Ubuntu 编译安装的帖子FLEXPART安装配置笔记（成功案例）——筑梦之路_筑梦之路的博客-CSDN博客

也遇到比较多的网友来咨询在编译安装过程中的问题，因此今天再次整理一下编译安装的过程，顺便解决之前写的不是很明确的地方，欢迎大家交流指正。

准备编译工作 # 更新软件源 sudo apt-get update # 安装编译工具和依赖包 sudo apt-get install -y g++ gfortran autoconf libtool automake flex bison cmake python3-dev python3-pip git vim curl unzip build-essential libbz2-dev libssl-dev libreadline-dev libsqlite3-dev tk-dev ruby # 安装python相关包 sudo apt-get install -y python3 python3-eccodes python3-genshi python3-numpy gfortran fftw3-dev libeccodes-dev libemos-dev # 配置pip显示的格式 sudo mkdir ~/.pip sudo cat > ~/.pip/pip.conf << EOF [list] format=columns EOF # 建立软链接 sudo ln -sf /usr/bin/python3 /usr/bin/python sudo ln -sf /usr/bin/pip3 /usr/bin/pip # 检查 sudo python -V sudo pip -V

 准备python环境 # 安装pip的包 sudo pip3 install cdsapi ecmwf-api-client eccodes==1.6.1 -i pypi.douban /simple #检查是否安装成功 sudo python3 -c "import eccodes; print(eccodes.__version__)" sudo python3 -c "import genshi; print(genshi.__version__)" sudo python3 -c "import numpy; print(numpy.__version__)" sudo pip3 list | grep cdsapi | awk '{print $2}' sudo python3 -c "import ecmwfapi; print(ecmwfapi.__version__)"

编译安装 1. 编译安装jasper # 下载源码包 wget -c http:// .ece.uvic.ca/~mdadams/jasper/software/jasper-1.900.1.zip # 解压文件到指定目录 unzip jasper-1.900.1.zip -d /usr/local/ # 新建目录 mkdir -p /usr/local/jasper # 切换目录 cd /usr/local/jasper-1.900.1 # 配置 CFLAGS="-fPIC" ./configure --prefix=/usr/local/jasper # 编译 make # 编译检查 make check # 安装 make install 2. 编译安装grib_api # 下载源码 wget -c people.freebsd.org/~sunpoet/sunpoet/grib_api-1.28.0-Source.tar.gz # 解压到指定目录 tar -zxvf grib_api-1.28.0-Source.tar.gz -C /usr/local/ # 创建目录 mkdir -p /usr/local/grib_api # 切换目录 cd /usr/local/grib_api-1.28.0-Source # 编译三部曲 ./configure --prefix=/usr/local/grib_api --with-jasper=/usr/local/jasper make make check make install 3. 编译安装eccodes # 下载源码 wget -c confluence.ecmwf.int/download/attachments/45757960/eccodes-2.7.3-Source.tar.gz?api=v2 # 解压源码到指定目录 tar xvzf eccodes-2.7.3-Source.tar.gz -C /usr/local/ # 创建目录 mkdir -p /usr/local/eccodes # 切换目录 cd /usr/local/eccodes-2.7.3-Source # 编译三部曲 mkdir build && cd build cmake -DCMAKE_INSTALL_PREFIX=/usr/local/eccodes /usr/local/eccodes-2.7.3-Source -DPYTHON_EXECUTABLE=/usr/bin/python3 make ctest make install # 配置环境变量 cat >> /etc/profile << 'EOF' export ECCODES_SAMPLES_PATH=$PATH:/usr/local/eccodes/share/eccodes/samples export ECCODES_DEFINITION_PATH=$PATH:/usr/local/eccodes/share/eccodes/definitions EOF source /etc/profile # 检查验证 sudo apt-get install libeccodes-dev python3 -m eccodes selfcheck # 正常输出如下： Found: ecCodes v2.6.0. Your system is ready.

4. 编译安装zlib # 下载源码 v=1.2.8 sudo wget http:// .zlib.net/fossils/zlib-${v}.tar.gz # 解压到指定目录 sudo tar -xf zlib-${v}.tar.gz -C /usr/local/ && cd /usr/local/zlib-${v} # 编译三部曲 sudo ./configure --prefix=/usr/local sudo make && make install 5. 编译安装 szlib # 下载源码 v=2.1 wget http://sources.buildroot.net/szip/szip-${v}.tar.gz # 解压到指定目录 tar -xf szip-${v}.tar.gz -C /usr/local/ cd /usr/local/szip-${v} && mkdir -p /usr/local/szip # 编译三部曲 ./configure --prefix=/usr/local/szip make make install 6. 编译安装hdf5 # 下载源码 v=1.8.13 wget .gfd-dennou.org/arch/ucar/netcdf/netcdf-4/hdf5-${v}.tar.gz # 解压到指定目录 tar -xf hdf5-${v}.tar.gz -C /usr/local/ && cd /usr/local/hdf5-${v} # 设置变量 prefix="/usr/local/hdf5-$v" echo "Add HDF5_DIR=$prefix to .bashrc" echo "" >> ~/.bashrc echo "# HDF5 libraries for python" >> ~/.bashrc echo export HDF5_DIR=$prefix >> ~/.bashrc # 编译三部曲 ./configure --enable-shared --enable-hl --prefix=$HDF5_DIR make -j 2 # 2 for number of procs to be used make install 7. 编译安装netcdf-c # 下载源码 v=4.1.3 wget 2.mmm.ucar.edu/wrf/OnLineTutorial/compile_tutorial/tar_files/netcdf-${v}.tar.gz # 解压到指定目录 tar -xf netcdf-${v}.tar.gz -C /usr/local/ && cd /usr/local/netcdf-${v} # 设置变量 prefix="/usr/local/" echo "Add NETCDF4_DIR=$prefix to .bashrc" echo "" >> ~/.bashrc echo "# NETCDF4 libraries for python" >> ~/.bashrc echo export NETCDF4_DIR=$prefix >> ~/.bashrc # 编译三部曲 CPPFLAGS=-I$HDF5_DIR/include LDFLAGS=-L$HDF5_DIR/lib ./configure --enable-netcdf-4 --enable-shared --enable-dap --prefix=$NETCDF4_DIR make make install 8. python Netcdf4 安装 # install python's netCDF4 sudo pip3 install cftime==1.3.1 -i pypi.douban /simple sudo pip3 install numpy==1.19.4 -i pypi.douban /simple sudo pip3 install netCDF4==1.5.5.1 -i pypi.douban /simple sudo python3 -c "import netCDF4;print(netCDF4.__version__)"

9. 编译安装FLEXPART10.4 # 下载源码 wget -c .flexpart.eu/downloads/66 # 解压到指定目录 tar -xvf 66 -C /usr/local/ # 切换目录 cd /usr/local/flexpart_v10.4_3d7eebf # 备份src目录 cp -r src src-backup-`date +%F` # 修改makefile文件 vim makefile #### 修改第一处 #modified to 64-73行 ROOT_DIR = /usr/local F90 = /usr/bin/gfortran MPIF90 = /usr/bin/mpifort INCPATH1 = ${ROOT_DIR}/grib_api/include INCPATH2 = ${ROOT_DIR}/jasper/include INCPATH3 = /include LIBPATH1 = ${ROOT_DIR}/grib_api/lib LIBPATH2 = ${ROOT_DIR}/jasper/lib LIBPATH3 = /lib #### 修改第二处 ### Enable netCDF output? ifeq ($(ncf), yes) NCOPT = -DUSE_NCF -lnetcdff -lnetcdf else NCOPT = -UUSE_NCF endif #### 修改第三处 ## LIBRARIES LIBS = -lgrib_api_f90 -lgrib_api -lm -ljasper $(NCOPT) -lnetcdff FFLAGS = -I$(INCPATH1) -I$(INCPATH2) -I$(INCPATH3) -O$(O_LEV) -g -cpp -m64 -mcmodel=medium -fconvert=little-endian -frecord-marker=4 -fmessage-length=0 -flto=jobserver -O$(O_LEV) $(NCOPT) $(FUSER) #-Warray-bounds -fcheck=all # -march=native DBGFLAGS = -I$(INCPATH1) -I$(INCPATH2) -I$(INCPATH3) -O$(O_LEV_DBG) -g3 -ggdb3 -cpp -m64 -mcmodel=medium -fconvert=little-endian -frecord-marker=4 -fmessage-length=0 -flto=jobserver -O$(O_LEV_DBG) $(NCOPT) -fbacktrace -Wall -fdump-core $(FUSER) # -ffpe-trap=invalid,overflow,denormal,underflow,zero -Warray-bounds -fcheck=all LDFLAGS = $(FFLAGS) -L$(LIBPATH1) -Wl,-rpath,$(LIBPATH1) $(LIBS) -L$(LIBPATH2) -L$(LIBPATH3) LDDEBUG = $(DBGFLAGS) -L$(LIBPATH1) $(LIBS) -L$(LIBPATH2) -L$(LIBPATH3) # 编译 make ncf=yes # 配置环境变量 cat >> /etc/profile <<'EOF' export LD_LIBRARY_PATH=/usr/local/grib_api/lib:$LD_LIBRARY_PATH EOF source /etc/profile 10. 准备安装flex_extract # 拉取源码 cd /usr/local git clone --single-branch --branch master .flexpart.eu/gitmob/flex_extract 1）编译安装zlib 1.2.9 # 下载zlib 1.2.9源码，编译安装zlib 1.2.9版本 wget sourceforge.net/projects/libpng/files/zlib/1.2.9/zlib-1.2.9.tar.gz # 解压到指定目录 tar -zxvf zlib-1.2.9.tar.gz -C /usr/local cd /usr/local/zlib-1.2.9 # 编译三部曲 ./configure; make; make install # 创建软链接 ln -s -f /usr/local/lib/libz.so.1.2.9 /lib/x86_64-linux-gnu/libz.so.1 2) 编译安装emoslib # 下载源码 wget confluence.ecmwf.int/download/attachments/3473472/libemos-4.5.9-Source.tar.gz # 创建目录 mkdir /usr/local/emoslib # 解压到指定目录 tar -xzf libemos-4.5.9-Source.tar.gz -C /usr/local/ # 切换目录 cd /usr/local/libemos-4.5.9-Source # 编译安装 mkdir build ; cd build cmake .. -DCMAKE_INSTALL_PREFIX=/usr/local/emoslib /usr/local/libemos-4.5.9-Source make make install 3）安装ECMWF 与ERA5安装权限 cat > ~/.ecmwfapirc <<EOF { "url" : " api.ecmwf.int/v1", "key" : "8fb37b516ba233bde068613a8f08c785", "email" : "791653827@qq " } EOF cat > ~/.cdsapirc <<EOF url: {api-url} key: {uid}:{api-key} EOF 4) 修改makefile_local_gfortran文件 # 切换目录 cd /usr/local/flex_extract/Source/Fortran/ # 修改文件 vim makefile_local_gfortran # change the original path of ECCODES_INCLUDE_DIR to ECCODES_INCLUDE_DIR=/usr/include 5) 执行安装flex_extract # 切换目录 cd /usr/local/flex_extract # 执行安装 ./setup_local.sh #成功结果输出如下内容 WARNING: installdir has not been specified flex_extract will be installed in here by compiling the Fortran source in /usr/local/flex_extract/Source/Fortran Install flex_extract_v7.1.2 software at local in directory /usr/local/flex_extract Using makefile: makefile_local_gfortran gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./rwgrib2.f90 gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./phgrreal.f90 gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./grphreal.f90 gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./ftrafo.f90 gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./calc_etadot.f90 gfortran -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -I. -I/usr/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./posnam.f90 gfortran rwgrib2.o calc_etadot.o ftrafo.o grphreal.o posnam.o phgrreal.o -o calc_etadot_fast.out -O3 -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -lemosR64 -fopenmp ln -sf calc_etadot_fast.out calc_etadot lrwxrwxrwx 1 root root 20 Oct 29 06:30 ./calc_etadot -> calc_etadot_fast.out

6）测试flex_extract  # 测试flex_extract cd Testing/Installation/Calc_etadot # execute the Fortran progam without arguments ../../../Source/Fortran/calc_etadot #成功结果展示： STATISTICS: 98842.4598 98709.7359 5120.5385 STOP SUCCESSFULLY FINISHED calc_etadot: CONGRATULATIONS

至此，已经全部编译安装完成，并测试成功。

这里附上python包的版本信息，以供各位参考：

# pip list Package Version ---------------------- ------------------- asn1crypto 0.24.0 attrs 17.4.0 Automat 0.6.0 blinker 1.4 cdsapi 0.6.1 certifi 2018.1.18 cffi 1.15.1 cftime 1.3.1 chardet 3.0.4 click 6.7 cloud-init 23.1.2 colorama 0.3.7 command-not-found 0.3 configobj 5.0.6 constantly 15.1.0 cryptography 2.1.4 distro-info 0.18ubuntu0.18.04.1 eccodes 1.6.1 ecmwf-api-client 1.6.3 findlibs 0.0.5 Genshi 0.7 httplib2 0.9.2 hyperlink 17.3.1 idna 2.6 importlib-resources 5.4.0 incremental 16.10.1 Jinja2 2.10 jsonpatch 1.16 jsonpointer 1.10 jsonschema 2.6.0 keyring 10.6.0 keyrings.alt 3.0 language-selector 0.1 MarkupSafe 1.0 netCDF4 1.5.5.1 netifaces 0.10.4 numpy 1.19.5 oauthlib 2.0.6 PAM 0.4.2 pexpect 4.2.1 pip 9.0.1 pyasn1 0.4.2 pyasn1-modules 0.2.1 pycparser 2.21 pycrypto 2.6.1 pygobject 3.26.1 PyJWT 1.5.3 pyOpenSSL 17.5.0 pyserial 3.4 python-apt 1.6.5+ubuntu0.7 python-debian 0.1.32 pyxdg 0.25 PyYAML 3.12 requests 2.18.4 requests-unixsocket 0.1.5 SecretStorage 2.3.1 service-identity 16.0.0 setuptools 39.0.1 six 1.11.0 sos 4.3 ssh-import-id 5.7 systemd-python 234 tqdm 4.64.1 Twisted 17.9.0 ubuntu-advantage-tools 27.2 ufw 0.36 unattended-upgrades 0.1 urllib3 1.22 wheel 0.30.0 zipp 3.6.0 zope.interface 4.3.2

如果不关心flexpart的版本，可以直接使用apt-get命令安装

apt-get update && apt-get install flexpart

 

相关源码包在我的资源或者通过文中链接地址下载。

注意事项：文中源码包的地址会随着时间过期，若不能下载请自行搜索相关版本文件。