KPP/WKC, WPS ungrib debug/test

pacedproton · Mar 8, 2020 · 3a15abb · 3a15abb
1 parent 61b7aaa
commit 3a15abb
Show file tree

Hide file tree

Showing 2 changed files with 33 additions and 24 deletions.
diff --git a/README b/README
@@ -1,4 +1,5 @@
-README WRF Environment Installation script facilitates the installation of the dependencies of WRF/WPS.
+README WRF Environment Installation script facilitates the installation of the dependencies 
+for WRF/WRF-Chem/WPS.
 
 Buildtime: All the necessary parameterization is to fill out the block marked for required parameters.
 
@@ -16,11 +17,11 @@ The Intel compilers, Intel MPI, cmake and perl need to be loadable through the m
 This script requires 2 passes to build WRF, 3 for WRF/WPS. 
 
 
-(1) Edit the script worf.sh parameter block top of the file to match the localenvironment.
+(1) Edit the script worf.sh parameter block top of the file to match the local environment.
 
 (2) Change to the script directory and run it from a bash shell: bash ./worf.sh
 
-(3) if testing was enabled (test='test') then the total compile time for the environment 
+(3) If testing was enabled (test='test') then the total compile time for the environment 
     dependencies on a 2020 high-end SMP is around an hour wallclock time; without testing about 20'/
 
 (4) Check if the dependencies have all been deployed to 
@@ -47,7 +48,9 @@ This script requires 2 passes to build WRF, 3 for WRF/WPS.
     a 2020 high-end SMP machine takes around an hour -O3 optmized wallclock compile time;
     about 10' unoptimized. 
 
-(8) Configure WPS: run: bash worf.sh wps 
+(8) For WRF-Chem compile the external emissions conversion as well: ./compile emi_conv
+
+(9) Configure WPS: run: bash worf.sh wps 
     for a WPS build environment and follow the screen-printed instructions
 
     run ./configure and select option 19 for Intel/distributed memory parallelism
@@ -57,22 +60,24 @@ This script requires 2 passes to build WRF, 3 for WRF/WPS.
     DM_CC: mpiicc
     LDFAGS: -qoopenmp
 
-    then enter the library and include paths from the generated wrf_environment.sh file
-    (see paramter section for location)
+    then edit the library and include paths from the generated wrf_environment.sh file
+    (see paramter section and wrf_environment.sh for the respective locations)
 
-    COMPRESSION_LIBS=-L<jasperpath>/lib -L<zlibpath>/lib -L<libpngpath>/lib -lpng -lz
+    COMPRESSION_LIBS=-L<jasperpath>/lib -L<zlibpath>/lib -L<libpngpath>/lib -ljasper -lpng -lz
     COMPRESSION_INC=-I<jasperpath>/include -I<zlibpath>/include -I<libpngpath>/include
 
     Example:
-    COMPRESSION_LIBS=-L/opt/worf/jasper/lib -L/opt/worf/zlib/lib -L/opt/worf/libpng/lib -ljasper -lpng -lz
-    COMPRESSION_INC=-I/opt/worf/jasper/include -L/opt/worf/zlib/lib -L/opt/worf/libpng/lib
+
+    COMPRESSION_LIBS=-L/gpfs/data/home/username/opt/jasper/lib64 -L/gpfs/data/data/home/usernameme/opt/zlib/lib -L/gpfs/data/data/home/username/opt/libpng/lib -ljasper -lpng -lz
+    COMPRESSION_INC=-I/gpfs/data/home/username/opt/jasper/include -L/gpfs/data/home/username/opt/zlib/lib -L/gpfs/data/home/username/opt/libpng/lib
 
     then run ./compile
 
-    look for geogrid.exe and metgrid.exe in the wps package directory for a successful build
+    geogrid.exe, metgrid.exe and ungrib.exe in the wps package directory signify a successful build
+
 
 
-Runtime:
+Runtime/Batch:
 
 Always first source the WRF_ENVIRONMENT file (default location: ${PREFIX}/${PACKAGES}/wrf_environment.sh)
 e.g. source wrf_environment.sh 

diff --git a/worf.sh b/worf.sh
@@ -1,7 +1,7 @@
 #!/bin/bash
 
 <<scriptdoc
-This WRF environment installation script facilitates the building the dependencies of WRF/WPS.
+This WRF environment installation script facilitates the building the dependencies of WRF/WRF-Chem/WPS.
  
 All the necessary parameterization is to fill out the block marked for
 required parameters and adapt the respective module environment_version names/versions. 
@@ -17,7 +17,7 @@ scriptdoc
 ### begin required parameters ###
 
 initialize() {
-    export PREFIX=/gpfs/data/fs71391/malexand/342c          # format: <PREFIX>/{<CATEGORY>, <PACKAGES>}
+    export PREFIX=/gpfs/data/home/username/mywrf          # format: <PREFIX>/{<CATEGORY>, <PACKAGES>}
     export CATEGORY='opt'
     export PACKAGES='pkg'
 
@@ -33,15 +33,10 @@ initialize() {
     environment_version[help2man]='help2man/1.47.8-intel-19.0.5.281-k3tb6t4'
 
     WRF_ENVIRONMENT=${PREFIX}/${PACKAGES}/wrf_environment.sh  # location for generated wrf environment file
-    WRF_CHEM=1
-    WRF_KPP=1
+    WRF_CHEM=0
+    WRF_KPP=0
     WRFIO_NCD_LARGE_FILE_SUPPORT=1
 
-    # todo kpp     
-    export KPP_HOME=/gpfs/data/fs71391/malexand/342c/pkg/wrf/chem/KPP/kpp/kpp-2.1/
-    # add path /gpfs/data/fs71391/malexand/342c/pkg/wrf/chem/KPP/kpp/kpp-2.1/bin
-    # configure_kpp script broken ./chem/KPP/configure_kpp
-
     export OPTI=O0
 
     ### end required parameters ###
@@ -91,6 +86,7 @@ initialize() {
     [[ $wps != 'wps' ]] && check_intelgnu
 }
 
+
 buildclean () {
     unset src_packages
     unset src_packages_version
@@ -148,6 +144,7 @@ buildclean () {
     fi
 }
 
+
 git_lazy_clone() {
     local this_package=$1
 
@@ -179,6 +176,7 @@ git_lazy_clone() {
     fi
 }
 
+
 check_intelgnu() {
     if [[ ${intelgnu} == 'intel' ]]; then
         for i_module in "${!environment_version[@]}"; do
@@ -205,6 +203,7 @@ line_printer() {
     echo -e "\n\n\n[info] building $1"
 }
 
+
 zlib () {
     local this_package=${FUNCNAME[0]}
     line_printer ${FUNCNAME[0]}
@@ -229,6 +228,7 @@ zlib () {
     printf "export ZLIB=%s\n" "$ZLIB" >> ${WRF_ENVIRONMENT}
 }
 
+
 curl () {
     local this_package=${FUNCNAME[0]}
     line_printer ${FUNCNAME[0]}
@@ -252,6 +252,7 @@ curl () {
     printf "export CURL=%s\n" "$CURL" >> ${WRF_ENVIRONMENT}
 }
 
+
 hdf5 () {
     local this_package=${FUNCNAME[0]}
     line_printer ${FUNCNAME[0]}
@@ -569,7 +570,7 @@ yacc() {
 
 
 persist_ld_library_path () {
-    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH_INITIAL:${HDF5}/lib:${ZLIB}/lib:${NETCDF_CF}/lib:${CURL}/lib:${PNETCDF}/lib:${LIBPNG}/lib:${NETCDF_C}/lib:${NETCDF_F}/lib:${JASPER}/lib64:${FLEX}:/lib"
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH_INITIAL:${HDF5}/lib:${ZLIB}/lib:${NETCDF_CF}/lib:${CURL}/lib:${PNETCDF}/lib:${LIBPNG}/lib:${NETCDF_C}/lib:${NETCDF_F}/lib:${JASPER}/lib64:${FLEX}/lib"
     printf "export LD_LIBRARY_PATH=%s\n" "$LD_LIBRARY_PATH" >> ${WRF_ENVIRONMENT}
 }
 
@@ -683,7 +684,7 @@ wps () {
 
     ################################################################################################
 
-    run ./configure and select option 19 for Intel/distributed memory parallelism
+    run ./configure and select option 19 for Intel/distributed memory parallelism (dmpar)
     edit the resulting file configure.wps with: 
     DM_FC: mpiifort
     DM_CC: mpiicc
@@ -696,8 +697,9 @@ wps () {
     COMPRESSION_INC=-I<jasperpath>/include -I<zlibpath>/include -I<libpngpath>/include
     
     Example:
-    COMPRESSION_LIBS=-L/opt/worf/jasper/lib -L/opt/worf/zlib/lib -L/opt/worf/libpng/lib -ljasper -lpng -lz
-    COMPRESSION_INC=-I/opt/worf/jasper/include/jasper -L/opt/worf/zlib/lib -L/opt/worf/libpng/lib
+
+    COMPRESSION_LIBS=-L/gpfs/data/home/username/opt/jasper/lib64 -L/gpfs/data/data/home/usernameme/opt/zlib/lib -L/gpfs/data/data/home/username/opt/libpng/lib -ljasper -lpng -lz
+    COMPRESSION_INC=-I/gpfs/data/home/username/opt/jasper/include -L/gpfs/data/home/username/opt/zlib/lib -L/gpfs/data/home/username/opt/libpng/lib
 
     then run ./compile
     issue clean before making changes to recompile or clean -a which also overwrites configure.wps
@@ -707,6 +709,7 @@ wps () {
 EOF
 }
 
+
 main () {
     buildclean
     initialize
@@ -727,6 +730,7 @@ main () {
     wrf
 }
 
+
 if [[ "$1" == 'wps' ]]; then
     export wps='wps'
     initialize