ICON.md updated list of environment modules, fixed eccodes links

ICON.md

@@ -6,17 +6,19 @@ ICON can be downloaded and used under a [personal non-commercial research licens
 
 1. Load the necessary modules.
     ```
+    mypy36) [serafin@jet01 build_jet]$ module list
     Currently Loaded Modulefiles:
-     1) intel-parallel-studio/composer.2020.2-intel-20.0.2-zuot22y
-     2) zlib/1.2.11-intel-20.0.2-3h374ov
-     3) openmpi/4.0.5-intel-20.0.2-4wfaaz4
-     4) hdf5/1.12.0-intel-20.0.2-ezeotzr
-     5) parallel-netcdf/1.12.1-intel-20.0.2-sgz3yqs
-     6) netcdf-c/4.7.4-intel-20.0.2-337uqtc
-     7) netcdf-fortran/4.5.3-intel-20.0.2-irdm5gq
-     8) netlib-lapack/3.9.1-gcc-8.5.0-ipqdnxj
-     9) openblas/0.3.18-gcc-8.5.0-zv6qss4
-    10) libxml2/2.9.12-intel-20.0.2-anavgpx
+    1) intel-parallel-studio/composer.2020.2-intel-20.0.2-zuot22y  
+    2) zlib/1.2.11-intel-20.0.2-3h374ov                            
+    3) openmpi/4.0.5-intel-20.0.2-4wfaaz4                          
+    4) hdf5/1.12.0-intel-20.0.2-ezeotzr                            
+    5) parallel-netcdf/1.12.1-intel-20.0.2-sgz3yqs                 
+    6) netcdf-c/4.7.4-intel-20.0.2-337uqtc                         
+    7) netcdf-fortran/4.5.3-intel-20.0.2-irdm5gq                   
+    8) libxml2/2.9.12-intel-20.0.2-anavgpx                         
+    9) openblas/0.3.18-gcc-8.5.0-zv6qss4                           
+    10) netlib-lapack/3.9.1-gcc-8.5.0-ipqdnxj                       
+    11) eccodes/2.18.0-intel-20.0.2-6tadpgr        
     ```
 
 1. Unpack the tarball of the source code.
@@ -76,7 +78,8 @@ ICON can be downloaded and used under a [personal non-commercial research licens
     netcdf-fortran/4.5.3-intel-20.0.2-irdm5gq \
     netlib-lapack/3.9.1-gcc-8.5.0-ipqdnxj \
     openblas/0.3.18-gcc-8.5.0-zv6qss4 \
-    libxml2/2.9.12-intel-20.0.2-anavgpx 
+    libxml2/2.9.12-intel-20.0.2-anavgpx \
+    eccodes/2.18.0-intel-20.0.2-6tadpgr
 
     ./configure \
     CC='/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/intel-parallel-studio-composer.2020.2-zuot22yfoe7jl67ttimvkzghwluvyaas/compilers_and_libraries_2020.2.254/linux/bin/intel64/icc' \
@@ -85,22 +88,25 @@ ICON can be downloaded and used under a [personal non-commercial research licens
             -I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/netcdf-fortran-4.5.3-irdm5gqccsig2om7jqu376h6tlebh4bc/include \
             -O3 -g" \
     CFLAGS="-I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/netcdf-c-4.7.4-337uqtcryw6nabweovh6kgsxozdwvylb/include" \
-    CPPFLAGS="-I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-2021.4.0/eccodes-2.21.0-xnc5g2flgzmvm72lbnp4mrxior4txqlo/include \
-              -I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/libxml2-2.9.12-anavgpxavrdktex4xecu6646yxhvqcul/include/libxml2" \
+    CPPFLAGS="-I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-2021.4.0/eccodes-2.21.0-cscplox6bvu6ry2jgua5bsjcxsgihc7m/include \
+            -I/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/libxml2-2.9.12-anavgpxavrdktex4xecu6646yxhvqcul/include/libxml2" \
     LDFLAGS="-L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/openmpi-4.0.5-4wfaaz4grfqvlblibkdrpjlwd4xnq3ud/lib \
             -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/netcdf-c-4.7.4-337uqtcryw6nabweovh6kgsxozdwvylb/lib \
             -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/netcdf-fortran-4.5.3-irdm5gqccsig2om7jqu376h6tlebh4bc/lib \
             -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/gcc-8.5.0/openblas-0.3.18-zv6qss4vqhaqt4a3x4zeh7sbi6buuai3/lib \
             -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/gcc-8.5.0/netlib-lapack-3.9.1-ipqdnxjet2tlzossnlxlz33v7f5x6ckf/lib64 \
             -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-20.0.2/libxml2-2.9.12-anavgpxavrdktex4xecu6646yxhvqcul/lib \
-            -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-2021.4.0/eccodes-2.21.0-xnc5g2flgzmvm72lbnp4mrxior4txqlo/lib64" \
+            -L/jetfs/spack/opt/spack/linux-rhel8-skylake_avx512/intel-2021.4.0/eccodes-2.21.0-cscplox6bvu6ry2jgua5bsjcxsgihc7m/lib64" \
     LIBS='-leccodes -lxml2 -llapack -lblas -lnetcdff -lnetcdf -lmpi' \
     --enable-mpi --enable-grib2 --without-external-cdi
     ```
     This configure script does two things: i) loads a selection of environment modules; ii) runs the ICON configure scripts passing all the required compiler flags.
 
-1. Prepare for an out-of-source build. Create a build directory wherever you want and move into it. In the build directory, execute `jet.ifort.sh` (the configuration script above)
+1. Prepare for an out-of-source build. Create a build directory in the source code root and move into it. In the build directory, link the `configure` file and then run `jet.ifort.sh` (the configuration script above)
     ```sh
+    (mypy36) [serafin@jet01 icon-2.6.6]$ mkdir jet
+    (mypy36) [serafin@jet01 icon-2.6.6]$ cd jet/
+    (mypy36) [serafin@jet01 jet]$ ln -s ../configure .
     (mypy36) [serafin@jet01 jet]$ /jetfs/home/serafin/ICON/icon-2.6.6/config/univie/jet.ifort.sh
     ```