This is the basic one about WRF-Chem. You can check this one for more information.

Requirements

flex(2.5.3)

$ cd flex_directory
$ wget http://www.ncl.ucar.edu/Download/files/flex.tar.gz
$ tar -xzf flex.tar.gz
$ cd flex-2.5.3
$ ./configure --prefix=flex_directory
$ make
$ make install

byacc

$ wget https://invisible-island.net/datafiles/release/byacc.tar.gz
$ tar -xzvf byacc.tar.gz
$ ./configure --prefix=<byacc_dir>
$ make
$ make install

Environment Variables

$ vi ~/.bashrc

#for chem

export WRF_CHEM=1
export WRF_KPP=1
export PATH=<yacc_dir>:$PATH
export PATH=<flex_dir>/bin:$PATH
export YACC='<yacc_dir>/yacc -d'
export FLEX=<flex_dir>/bin/flex
export FLEX_LIB_DIR=<flex_dir>/lib
source ~/.bash_profile

WRF-Chem

Fix bug

In line 82 of chem/KPP/kpp/kpp-2.1/src/Makefile, change 
	@$(YACC) scan.y
to 
	@$(YACC) -d scan.y
Deleting -ll link:
Open file chem/KPP/kpp/kpp-2.1/src/Makefile
delete all (there are two) entrances of -ll there.

There’re two issues in module_lightning_driver in the phys/ directory (as mentioned in wrf-chem lightning forum):

1. in subroutine lightning_driver, the following line (in my version on line 310):

IF ( MOD((itimestep * dt - lightning_start_seconds), lightning_dt ) .ne. 0 ) RETURN will exit the subroutine if lightning_start_seconds is a multiple of lightning_dt (in the default case where lightning_dt is set to the model time step).

2. line 474:

WRITE(message, * ) ’ lightning_driver: using user-prescribed IC:CG ratio = ‘, iccg_prescribed_num, iccg_prescribed_den results in an error because only one variable can be added to the string. Changing this to: WRITE(message, * ) ’ lightning_driver: using user-prescribed IC:CG ratio = ‘, iccg_prescribed_num / iccg_prescribed_den resolves the issue.

Compile

$ cd WRFV3/
$ ./configure
(dmpar)   INTEL (ifort/icc)
basic
$ vi configure.wrf
$ ./compile em_real >& compile.log &

WPS

$ ./configure
intel (dmpar)
./compile > compile.log &

PS:

My environment variables:

hpc nuist

module unload intel
module load intel/16.0.1 hdf5 netcdf jasper zlib libpng grib_api ncview ncl openmpi

#for chem
export WRF_CHEM=1
export WRF_KPP=1
export PATH=my_work_path/model/yacc/byacc-20170709:$PATH
export PATH=my_work_path/model/flex/flex-2.5.3/bin:$PATH
export YACC='my_work_path/model/yacc/byacc-20170709/yacc -d'
export FLEX=my_work_path/model/flex/flex-2.5.3/bin/flex
export FLEX_LIB_DIR=my_work_path/model/flex/flex-2.5.3/lib

# added by Anaconda3 4.4.0 installer
#export PATH="my_home_path/anaconda3/bin:$PATH"

# hdfview
#export PATH=my_work_path/softwares/hdfview/HDFView-3.0.0-Linux/HDFView/3.0.0:$PATH

dqwl

## intel
export OPENMPLIB=/public/software/compiler/composer_xe_2013_sp1.0.080/compiler/lib/intel64

## netcdf and hdf5
software=/public/home/zhangxin/softwares
export HDF5=${software}/hdf5-1.8.21
export NETCDF=${software}/netcdf-4.6.2
export PATH="${HDF5}/bin:${NETCDF}/bin:${PATH}"
export LD_LIBRARY_PATH="${HDF5}/lib:${NETCDF}/lib:${LD_LIBRARY_PATH}"

## jasper
export JASPER=/public/software/mathlib/jasper
export JASPERINC=${JASPER}/include
export JASPERLIB=${JASPER}/lib

export PATH=${JASPER}/bin:$PATH
export LD_LIBRARY_PATH=${JASPER}/lib:$LD_LIBRARY_PATH
export LIBRARY_PATH=${JASPER}/lib:$LIBRARY_PATH

## WRF-Chem
((EM_CORE=WRF_EM_CORE=WRF_CHEM=WRF_KPP=1))
((NMM_CORE=WRF_NMM_CORE=0))
export EM_CORE WRF_EM_CORE WRF_CHEM WRF_KPP
export NMM_CORE WRF_NMM_CORE

export WRFIO_NCD_LARGE_FILE_SUPPORT=1

export PATH=${software}/byacc-20170709/bin:$PATH
export PATH=${software}/flex-2.5.3/bin:$PATH
export YACC="${software}/byacc-20170709/yacc -d"
export FLEX=${software}/flex-2.5.3/bin/flex
export FLEX_LIB_DIR=${software}/flex-2.5.3/lib


#hdfview
export PATH=${software}/HDFView/3.0.0:$PATH
export PATH=${software}/HDFView/3.0.0/slf4j-1.7.25:$PATH

#ncview
export PATH=/public/software/mathlib/ncview-2.1.5/bin:$PATH