add CI from cdi-1.8.x-pio-merge

.ci/bb/breeze-mpim/test.all.nv-21.3.0

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_nv2130
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-grib-api="${GRIBAPI_ROOT}" \
+--with-netcdf="${NETCDF_ROOT}" \
+CC="${MPICC}" \
+FC="${MPIFC}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig"
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/breeze-mpim/utils.sh

+#
+# Initializes the environment modules.
+#
+init_env_mods ()
+{
+  saved_set=$-
+  set +eu
+  . /etc/profile.d/mpim.sh
+  module use /data/mpi/sclab/sip/m300488/nvhpc/modulefiles
+  set -${saved_set}
+}
+
+#
+# Accepts a list of environment modules and loads them witch conflict
+# resolution.
+#
+switch_for_module ()
+{
+  for sfm_module in "$@"; do
+    sfm_module_full=
+    sfm_module_short=
+    case $sfm_module in
+      */*)
+        # The module is provided with the version part:
+        sfm_module_full=$sfm_module
+        sfm_module_short=`echo $sfm_module | sed 's%/[^/]*$%%'` ;;
+      *)
+        # Only the name of the module is provided, get the default version:
+        sfm_module_full=`module show $sfm_module 2>&1 | sed -n "s%^[^ \t]*/\\($sfm_module.*\\):%\\1%p"`
+        sfm_module_short=$sfm_module ;;
+    esac
+
+    # A space-separated list of modules that are already loaded:
+    sfm_loaded_full=`module -t list 2>&1 | tr '\n' ' ' | sed 's/^.*Modulefiles://' | sed 's/(default)//g'`
+
+    # Check whether the requested module if already loaded:
+    if test -n "$sfm_module_full"; then
+      case " $sfm_loaded_full " in
+        *" $sfm_module_full "*)
+          echo "module $sfm_module is already loaded"
+          continue ;;
+      esac
+    fi
+
+    # A list of modules in conflict:
+    sfm_conflicts=`module show $sfm_module 2>&1 | sed -n 's/^conflict\(.*\)/\1/p' | tr '\n\t' '  '`
+
+    # A list of loaded modules without version parts:
+    sfm_loaded_short=`echo "$sfm_loaded_full" | sed 's%\([^ ][^ ]*\)/[^ ]*%\1%g'`
+
+    # Add the short name of the module to the list of conflicts:
+    sfm_conflicts="$sfm_conflicts $sfm_module_short"
+
+    # A list of loaded modules that are in conflict with the requested module:
+    sfm_loaded_conflicts=
+    for sfm_conflict in $sfm_conflicts""; do
+      sfm_loaded_list=      
+      case $sfm_conflict in
+        */*)
+          # The conflict is specified with the version part:
+          sfm_loaded_list=$sfm_loaded_full ;;
+        *)
+          # The conflict is specified without the version part:
+          sfm_loaded_list=$sfm_loaded_short ;;
+      esac
+
+      # Check that the conflicted module is loaded:
+      case " $sfm_loaded_list " in
+        *" $sfm_conflict "*)
+          # The conflict is loaded, check whether it is already added to the
+          # list:
+          case " $sfm_loaded_conflicts " in
+            *" $sfm_conflict "*) ;;
+            *)
+              # The conflict is not in the list, append:
+              sfm_loaded_conflicts="$sfm_loaded_conflicts $sfm_conflict" ;;
+          esac
+        ;;
+      esac
+    done
+
+    # Calculate the number of modules that must be unloaded to before loading
+    # the requested module:
+    sfm_loaded_conflicts_count=`echo $sfm_loaded_conflicts | wc -w`
+
+    case $sfm_loaded_conflicts_count in
+      0)
+        # None of the conflicting modules is loaded:
+        sfm_cmd="module load $sfm_module" ;;
+      1)
+        # There is only one module that must be unloaded, use switch command:
+        sfm_cmd="module switch $sfm_loaded_conflicts $sfm_module" ;;
+      *)
+        # There is more than one module that must be unloaded, unload all of
+        # them and then load the requested one:
+        sfm_cmd="module unload $sfm_loaded_conflicts && module load $sfm_module" ;;
+    esac
+
+    echo "$sfm_cmd"
+    eval "$sfm_cmd"
+  done
+}
+
+#
+# Sets variables for tests with NVHPC 21.3.0.
+#
+init_nv2130()
+{
+  init_env_mods
+  switch_for_module nvhpc/21.3
+
+  # The default environment module of NVHPC sets variables, which we do not
+  # want:
+  unset CC CPP CXX F77 F90 FC
+
+  CC=nvc
+  CXX=nvc++
+  FC=nvfortran
+  MPICC=mpicc
+  MPIFC=mpif90
+  MPI_LAUNCH="$(which mpirun) --mca mpi_cuda_support 0 --oversubscribe"
+
+  GRIBAPI_ROOT='/sw/stretch-x64/grib_api/grib_api-1.21.0-gccsys'
+  NETCDF_ROOT='/sw/stretch-x64/netcdf/netcdf_c-4.6.1'
+  PPM_ROOT='/data/mpi/sclab/sip/m300488/cdi-pio-sw/ppm-1.0.6-nv21'
+  YAXT_ROOT='/data/mpi/sclab/sip/m300488/cdi-pio-sw/yaxt-0.9.0-nv21'
+}
+
+#
+# Accepts a path to a file containing standard output of the 'make check'
+# command and checks whether all tests were run and passed.
+#
+check_all_tests_passed ()
+{
+  awk '/^# TOTAL: /{ total=$3 };
+       /^# PASS: /{ pass=$3 };
+       END {
+         if ( total == "" || total != pass ) {
+           print "ERROR: the total number of tests is not equal to the number of passed tests";
+           exit 1;
+         }
+       }' $1 >&2
+}

.ci/bb/daint-cscs/test.all.cray-11.0.0

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_cray1100
+
+# The configure script does not check the 'lib64' subdirectory, therefore we
+# run it with '--with-eccodes' and the following flags. Note that fixing this
+# in the configure script might be tricky: the 'lib64' subdirectory should be
+# checked first but if it does not exist or does not contain the library, we
+# might end up linking to a library from the linker's default search path
+# (e.g. /usr/lib) instead of the one from "$with_eccodes/lib" because
+# "-L${with_eccodes}/lib64" would be ignored in that case:
+CPPFLAGS="-I${ECCODES_ROOT}/include"
+LDFLAGS="-L${ECCODES_ROOT}/lib64"
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-concurrent-mpi-checks \
+--with-eccodes \
+--with-netcdf \
+CC="${CC}" \
+CPPFLAGS="${CPPFLAGS}" \
+FC="${FC}" \
+LDFLAGS="${LDFLAGS}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig:${PKG_CONFIG_PATH}"
+
+make -j8
+
+# Run with '-j' to submit as many MPI jobs as possible
+# (see '--with-concurrent-mpi-checks'):
+make -j check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/daint-cscs/test.all.pgi-20.1.1

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_pgi2011
+
+# The configure script does not check the 'lib64' subdirectory, therefore we
+# run it with '--with-eccodes' and the following flags. Note that fixing this
+# in the configure script might be tricky: the 'lib64' subdirectory should be
+# checked first but if it does not exist or does not contain the library, we
+# might end up linking to a library from the linker's default search path
+# (e.g. /usr/lib) instead of the one from "$with_eccodes/lib" because
+# "-L${with_eccodes}/lib64" would be ignored in that case:
+CPPFLAGS="-I${ECCODES_ROOT}/include"
+LDFLAGS="-L${ECCODES_ROOT}/lib64"
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-concurrent-mpi-checks \
+--with-eccodes \
+--with-netcdf \
+CC="${CC}" \
+CPPFLAGS="${CPPFLAGS}" \
+FC="${FC}" \
+LDFLAGS="${LDFLAGS}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig:${PKG_CONFIG_PATH}"
+
+make -j8
+
+# Run with '-j' to submit as many MPI jobs as possible
+# (see '--with-concurrent-mpi-checks'):
+make -j check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/daint-cscs/utils.sh

+#
+# Initializes the environment modules.
+#
+init_env_mods ()
+{
+  :
+}
+
+#
+# Accepts a list of environment modules and loads them witch conflict
+# resolution.
+#
+switch_for_module ()
+{
+  for sfm_module in "$@"; do
+    sfm_module_full=
+    sfm_module_short=
+    case $sfm_module in
+      */*)
+        # The module is provided with the version part:
+        sfm_module_full=$sfm_module
+        sfm_module_short=`echo $sfm_module | sed 's%/[^/]*$%%'` ;;
+      *)
+        # Only the name of the module is provided, get the default version:
+        sfm_module_full=`module show $sfm_module 2>&1 | sed -n "s%^[^ \t]*/\\($sfm_module.*\\):%\\1%p"`
+        sfm_module_short=$sfm_module ;;
+    esac
+
+    # A space-separated list of modules that are already loaded:
+    sfm_loaded_full=`module -t list 2>&1 | tr '\n' ' ' | sed 's/^.*Modulefiles://' | sed 's/(default)//g'`
+
+    # Check whether the requested module if already loaded:
+    if test -n "$sfm_module_full"; then
+      case " $sfm_loaded_full " in
+        *" $sfm_module_full "*)
+          echo "module $sfm_module is already loaded"
+          continue ;;
+      esac
+    fi
+
+    # A list of modules in conflict:
+    sfm_conflicts=`module show $sfm_module 2>&1 | sed -n 's/^conflict\(.*\)/\1/p' | tr '\n\t' '  '`
+
+    # A list of loaded modules without version parts:
+    sfm_loaded_short=`echo "$sfm_loaded_full" | sed 's%\([^ ][^ ]*\)/[^ ]*%\1%g'`
+
+    # Add the short name of the module to the list of conflicts:
+    sfm_conflicts="$sfm_conflicts $sfm_module_short"
+
+    # A list of loaded modules that are in conflict with the requested module:
+    sfm_loaded_conflicts=
+    for sfm_conflict in $sfm_conflicts""; do
+      sfm_loaded_list=      
+      case $sfm_conflict in
+        */*)
+          # The conflict is specified with the version part:
+          sfm_loaded_list=$sfm_loaded_full ;;
+        *)
+          # The conflict is specified without the version part:
+          sfm_loaded_list=$sfm_loaded_short ;;
+      esac
+
+      # Check that the conflicted module is loaded:
+      case " $sfm_loaded_list " in
+        *" $sfm_conflict "*)
+          # The conflict is loaded, check whether it is already added to the
+          # list:
+          case " $sfm_loaded_conflicts " in
+            *" $sfm_conflict "*) ;;
+            *)
+              # The conflict is not in the list, append:
+              sfm_loaded_conflicts="$sfm_loaded_conflicts $sfm_conflict" ;;
+          esac
+        ;;
+      esac
+    done
+
+    # Calculate the number of modules that must be unloaded to before loading
+    # the requested module:
+    sfm_loaded_conflicts_count=`echo $sfm_loaded_conflicts | wc -w`
+
+    case $sfm_loaded_conflicts_count in
+      0)
+        # None of the conflicting modules is loaded:
+        sfm_cmd="module load $sfm_module" ;;
+      1)
+        # There is only one module that must be unloaded, use switch command:
+        sfm_cmd="module switch $sfm_loaded_conflicts $sfm_module" ;;
+      *)
+        # There is more than one module that must be unloaded, unload all of
+        # them and then load the requested one:
+        sfm_cmd="module unload $sfm_loaded_conflicts && module load $sfm_module" ;;
+    esac
+
+    echo "$sfm_cmd"
+    eval "$sfm_cmd"
+  done
+}
+
+#
+# Sets variables for tests with Cray 11.0.0.
+#
+init_cray1100()
+{
+  init_env_mods
+  switch_for_module craype PrgEnv-cray cce/11.0.0 cray-mpich cray-netcdf
+
+  CC=cc
+  CXX=CC
+  FC=ftn
+  MPI_LAUNCH="$(which srun) -p cscsci -C gpu -A d56 -t 05:00"
+
+  ECCODES_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/eccodes-20.20.0-cray11'
+  PPM_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/ppm-1.0.6-cray11'
+  YAXT_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/yaxt-0.9.0-cray11'
+
+  # Here we fix a never-ending story with Libtool overlinkning, absence of
+  # '*.la' files when they could help, and '-Wl,--disable/enable-new-dtags':
+  export LD_LIBRARY_PATH="${ECCODES_ROOT}/lib64:${LD_LIBRARY_PATH-}"
+}
+
+#
+# Sets variables for tests with PGI 20.1.1.
+#
+init_pgi2011()
+{
+  init_env_mods
+  switch_for_module craype PrgEnv-pgi pgi/20.1.1 cray-mpich cray-netcdf
+
+  CC=cc
+  CXX=CC
+  FC=ftn
+  MPI_LAUNCH="$(which srun) -p cscsci -C gpu -A d56 -t 05:00"
+
+  ECCODES_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/eccodes-20.20.0-pgi20'
+  PPM_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/ppm-1.0.6-pgi20'
+  # YAXT 0.9.0 cannot be built with PGI 20.1.1:
+  YAXT_ROOT='/scratch/snx3000/skosukhi/cdi-pio-sw/yaxt-0.7.0-p1-pgi20'
+
+  # Here we fix a never-ending story with Libtool overlinkning, absence of
+  # '*.la' files when they could help, and '-Wl,--disable/enable-new-dtags':
+  export LD_LIBRARY_PATH="${ECCODES_ROOT}/lib64:${LD_LIBRARY_PATH-}"
+}
+
+#
+# Accepts a path to a file containing standard output of the 'make check'
+# command and checks whether all tests were run and passed.
+#
+check_all_tests_passed ()
+{
+  awk '/^# TOTAL: /{ total=$3 };
+       /^# PASS: /{ pass=$3 };
+       END {
+         if ( total == "" || total != pass ) {
+           print "ERROR: the total number of tests is not equal to the number of passed tests";
+           exit 1;
+         }
+       }' $1 >&2
+}

.ci/bb/mistral-dkrz/test.all.gcc-6.4.0

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_gcc640
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-grib-api="${GRIBAPI_ROOT}" \
+--with-netcdf="${NETCDF_ROOT}" \
+CC="${MPICC}" \
+FC="${MPIFC}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig"
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/mistral-dkrz/test.all.intel-17.0.6

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_intel1706
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-grib-api="${GRIBAPI_ROOT}" \
+--with-netcdf="${NETCDF_ROOT}" \
+CC="${MPICC}" \
+FC="${MPIFC}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig"
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/mistral-dkrz/test.all.nag-6.2.6223

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_nag626223
+
+# Use GCC from the path when compiling/linking Fortran code:
+FCFLAGS="-Wc=$(which gcc)"
+
+# MPI library is built with -kind=byte, therefore we have to specify it here:
+FCFLAGS+=' -g -kind=byte'
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-eccodes="${ECCODES_ROOT}" \
+--with-netcdf="${NETCDF_ROOT}" \
+CC="${MPICC}" \
+FC="${MPIFC}" \
+FCFLAGS="${FCFLAGS}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig"
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/mistral-dkrz/test.all.pgi-19.9.0

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_pgi1990
+
+# The configure script does not check the 'lib64' subdirectory, therefore we
+# run it with '--with-eccodes' and the following flags. Note that fixing this
+# in the configure script might be tricky: the 'lib64' subdirectory should be
+# checked first but if it does not exist or does not contain the library, we
+# might end up linking to a library from the linker's default search path
+# (e.g. /usr/lib) instead of the one from "$with_eccodes/lib" because
+# "-L${with_eccodes}/lib64" would be ignored in that case:
+CPPFLAGS="-I${ECCODES_ROOT}/include"
+LDFLAGS="-L${ECCODES_ROOT}/lib64"
+
+# There is no libnetcdf.la file, therefore Libtool does not know how to link
+# to the right library:
+LDFLAGS+=" -L${HDF5_ROOT}/lib"
+
+"${top_srcdir}/configure" \
+--enable-cf-interface \
+--enable-iso-c-interface \
+--enable-mpi \
+--enable-option-checking=fatal \
+--enable-ppm-dist-array \
+--with-eccodes \
+--with-netcdf="${NETCDF_ROOT}" \
+CC="${MPICC}" \
+CPPFLAGS="${CPPFLAGS}" \
+FC="${MPIFC}" \
+LDFLAGS="${LDFLAGS}" \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG_PATH="${YAXT_ROOT}/lib/pkgconfig:${PPM_ROOT}/lib/pkgconfig"
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/mistral-dkrz/test.icon-pio.nag-6.2.6223

+#!/bin/bash
+
+set -eu
+set -o pipefail
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_nag626223
+
+# When configured as part of ICON, C headers, Fortran modules and library files
+# of YAXT and PPM become available only at the build time. The following
+# imitates that.
+
+WRONG_YAXT_ROOT=$(init_pgi1990 >/dev/null && echo "${YAXT_ROOT}")
+export PKG_CONFIG_PATH="${WRONG_YAXT_ROOT}/lib/pkgconfig"
+export LD_LIBRARY_PATH="${WRONG_YAXT_ROOT}/lib:${LD_LIBRARY_PATH-}"
+
+LOCAL_YAXT_ROOT="$(pwd)/cdi-test-yaxt"
+LOCAL_PPM_ROOT="$(pwd)/cdi-test-ppm"
+
+rm -rf "${LOCAL_YAXT_ROOT}" "${LOCAL_PPM_ROOT}"
+
+# There is not way for the configure script of ICON to provide the configure
+# script of CDI with the path to the installation of NetCDF in use. Here we
+# imitate a situation when 'nc-config' from another (wrong) installation of
+# NetCDF is in the PATH.
+WRONG_NETCDF_ROOT=$(init_gcc640 >/dev/null && echo "${NETCDF_ROOT}")
+export PATH="${WRONG_NETCDF_ROOT}/bin:${PATH-}"
+
+# The configure wrappers of ICON export LD_LIBRARY_PATH:
+export LD_LIBRARY_PATH="${MPICH_ROOT}/lib:${NETCDF_ROOT}/lib:${ECCODES_ROOT}/lib:${LD_LIBRARY_PATH}"
+
+"${top_srcdir}/configure" \
+--disable-cdi-app \
+--disable-maintainer-mode \
+--disable-shared \
+--enable-cf-interface=yes \
+--enable-cgribex \
+--enable-grib \
+--enable-iso-c-interface \
+--enable-mpi=yes \
+--enable-ppm-dist-array=yes \
+--enable-silent-rules=no \
+--enable-static \
+--with-eccodes=yes \
+--with-netcdf \
+--with-on-demand-check-programs \
+--without-example-programs \
+--without-grib-api \
+--without-szlib \
+--without-threads \
+CC="${CC}" \
+CFLAGS='-g -march=native -O2' \
+CPPFLAGS="-I${MPICH_ROOT}/include -I${NETCDF_ROOT}/include -I${ECCODES_ROOT}/include" \
+CXX=no \
+F77=no \
+FC="${FC}" \
+FCFLAGS="-I${MPICH_ROOT}/include -kind=byte -colour -f2008 -Wc=$(which gcc) -w=uep -O0 -Wc,-g -float-store -nan -gline -g" \
+LDFLAGS="-L${MPICH_ROOT}/lib -L${NETCDF_ROOT}/lib -L${ECCODES_ROOT}/lib" \
+LIBS='-leccodes -lnetcdf -lmpifort -lmpi -lubsan' \
+MPIROOT= \
+MPI_C_INCLUDE= \
+MPI_C_LIB= \
+MPI_FC_LIB= \
+MPI_FC_MOD= \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG= \
+PPM_CORE_C_INCLUDE= \
+PPM_CORE_C_LIB= \
+YAXT_C_INCLUDE= \
+YAXT_C_LIB= \
+YAXT_FC_LIB= \
+YAXT_FC_MOD= \
+ac_cv_func_uuid_create=no \
+ac_cv_header_ppm_dist_array_h=yes \
+ac_cv_lib_uuid_uuid_generate=no \
+acx_cv_c_include_ppm_ppm_h="-I${LOCAL_PPM_ROOT}/include" \
+acx_cv_c_include_yaxt_h="-I${LOCAL_YAXT_ROOT}/include" \
+acx_cv_fortran_mod_yaxt="-I${LOCAL_YAXT_ROOT}/include" \
+acx_cv_have_libnc_dap=no \
+acx_cv_have_nc4hdf5=no \
+acx_cv_have_netcdf2=yes \
+acx_cv_have_netcdf4=yes \
+acx_cv_have_pnetcdf=no \
+acx_cv_option_search_PPM_initialize_c="${LOCAL_PPM_ROOT}/lib/libscalesppmcore.a" \
+acx_cv_option_search_xt_initialized_c="${LOCAL_YAXT_ROOT}/lib/libyaxt_c.a" \
+acx_cv_option_search_xt_initialized_fc="${LOCAL_YAXT_ROOT}/lib/libyaxt.a ${LOCAL_YAXT_ROOT}/lib/libyaxt_c.a"
+
+rsync -uavz "${YAXT_ROOT}/" "${LOCAL_YAXT_ROOT}" --exclude='*.la' --exclude='*.pc' --exclude='*.so' --exclude='*.so.*'
+rsync -uavz "${PPM_ROOT}/" "${LOCAL_PPM_ROOT}" --exclude='*.la' --exclude='*.pc' --exclude='*.so' --exclude='*.so.*'
+
+make -j8
+
+make -j8 check | tee check.log
+
+check_all_tests_passed check.log

.ci/bb/mistral-dkrz/test.icon.gcc-6.4.0

+#!/bin/bash
+
+set -eu
+
+script_dir=$(cd "$(dirname "$0")"; pwd)
+top_srcdir=$(cd "${script_dir}/../../.."; pwd)
+
+. "${script_dir}/utils.sh"
+init_gcc640
+
+# The configure wrappers of ICON export LD_LIBRARY_PATH:
+export LD_LIBRARY_PATH="${NETCDF_ROOT}/lib:${GRIBAPI_ROOT}/lib:${LD_LIBRARY_PATH-}"
+
+"${top_srcdir}/configure" \
+--disable-cdi-app \
+--disable-maintainer-mode \
+--disable-shared \
+--enable-cf-interface=no \
+--enable-cgribex \
+--enable-grib \
+--enable-iso-c-interface \
+--enable-mpi=no \
+--enable-ppm-dist-array=no \
+--enable-silent-rules=no \
+--enable-static \
+--with-eccodes=yes \
+--with-netcdf \
+--with-on-demand-check-programs \
+--without-example-programs \
+--without-grib_api \
+--without-szlib \
+--without-threads \
+CC="${MPICC}" \
+CFLAGS='-g -march=native -mpc64 -O2' \
+CPPFLAGS="-I${NETCDF_ROOT}/include -I${GRIBAPI_ROOT}/include" \
+CXX=no \
+F77=no \
+FC="${MPIFC}" \
+FCFLAGS='-std=f2008 -fmodule-private -fimplicit-none -fmax-identifier-length=63 -Wall -Wcharacter-truncation -Wconversion -Wunderflow -Wunused-parameter -Wno-surprising -fall-intrinsics -g -march=native -mpc64' \
+LDFLAGS="-L${NETCDF_ROOT}/lib -L${GRIBAPI_ROOT}/lib" \
+LIBS='-lgrib_api -lnetcdf' \
+MPIROOT= \
+MPI_C_INCLUDE= \
+MPI_C_LIB= \
+MPI_FC_LIB= \
+MPI_FC_MOD= \
+MPI_LAUNCH="${MPI_LAUNCH}" \
+PKG_CONFIG= \
+PPM_CORE_C_INCLUDE= \
+PPM_CORE_C_LIB= \
+YAXT_C_INCLUDE= \
+YAXT_C_LIB= \
+YAXT_FC_LIB= \
+YAXT_FC_MOD= \
+ac_cv_func_uuid_create=no \
+ac_cv_lib_uuid_uuid_generate=no \
+acx_cv_have_libnc_dap=no \
+acx_cv_have_nc4hdf5=no \
+acx_cv_have_netcdf2=yes \
+acx_cv_have_netcdf4=yes \
+acx_cv_have_pnetcdf=no
+
+make -j8
+
+make -j8 check

.ci/bb/mistral-dkrz/utils.sh

+#
+# Initializes the environment modules.
+#
+init_env_mods ()
+{
+  saved_set=$-
+  set +eu
+  . /sw/rhel6-x64/etc/profile.mistral
+  module use /sw/spack-rhel6/spack/modules/linux-rhel6-haswell
+  set -${saved_set}
+}
+
+#
+# Accepts a list of environment modules and loads them witch conflict
+# resolution.
+#
+switch_for_module ()
+{
+  for sfm_module in "$@"; do
+    sfm_module_full=
+    sfm_module_short=
+    case $sfm_module in
+      */*)
+        # The module is provided with the version part:
+        sfm_module_full=$sfm_module
+        sfm_module_short=`echo $sfm_module | sed 's%/[^/]*$%%'` ;;
+      *)
+        # Only the name of the module is provided, get the default version:
+        sfm_module_full=`module show $sfm_module 2>&1 | sed -n "s%^[^ \t]*/\\($sfm_module.*\\):%\\1%p"`
+        sfm_module_short=$sfm_module ;;
+    esac
+
+    # A space-separated list of modules that are already loaded:
+    sfm_loaded_full=`module -t list 2>&1 | tr '\n' ' ' | sed 's/^.*Modulefiles://' | sed 's/(default)//g'`
+
+    # Check whether the requested module if already loaded:
+    if test -n "$sfm_module_full"; then
+      case " $sfm_loaded_full " in
+        *" $sfm_module_full "*)
+          echo "module $sfm_module is already loaded"
+          continue ;;
+      esac
+    fi
+
+    # A list of modules in conflict:
+    sfm_conflicts=`module show $sfm_module 2>&1 | sed -n 's/^conflict\(.*\)/\1/p' | tr '\n\t' '  '`
+
+    # A list of loaded modules without version parts:
+    sfm_loaded_short=`echo "$sfm_loaded_full" | sed 's%\([^ ][^ ]*\)/[^ ]*%\1%g'`
+
+    # Add the short name of the module to the list of conflicts:
+    sfm_conflicts="$sfm_conflicts $sfm_module_short"
+
+    # A list of loaded modules that are in conflict with the requested module:
+    sfm_loaded_conflicts=
+    for sfm_conflict in $sfm_conflicts""; do
+      sfm_loaded_list=      
+      case $sfm_conflict in
+        */*)
+          # The conflict is specified with the version part:
+          sfm_loaded_list=$sfm_loaded_full ;;
+        *)
+          # The conflict is specified without the version part:
+          sfm_loaded_list=$sfm_loaded_short ;;
+      esac
+
+      # Check that the conflicted module is loaded:
+      case " $sfm_loaded_list " in
+        *" $sfm_conflict "*)
+          # The conflict is loaded, check whether it is already added to the
+          # list:
+          case " $sfm_loaded_conflicts " in
+            *" $sfm_conflict "*) ;;
+            *)
+              # The conflict is not in the list, append:
+              sfm_loaded_conflicts="$sfm_loaded_conflicts $sfm_conflict" ;;
+          esac
+        ;;
+      esac
+    done
+
+    # Calculate the number of modules that must be unloaded to before loading
+    # the requested module:
+    sfm_loaded_conflicts_count=`echo $sfm_loaded_conflicts | wc -w`
+
+    case $sfm_loaded_conflicts_count in
+      0)
+        # None of the conflicting modules is loaded:
+        sfm_cmd="module load $sfm_module" ;;
+      1)
+        # There is only one module that must be unloaded, use switch command:
+        sfm_cmd="module switch $sfm_loaded_conflicts $sfm_module" ;;
+      *)
+        # There is more than one module that must be unloaded, unload all of
+        # them and then load the requested one:
+        sfm_cmd="module unload $sfm_loaded_conflicts && module load $sfm_module" ;;
+    esac
+
+    echo "$sfm_cmd"
+    eval "$sfm_cmd"
+  done
+}
+
+#
+# Sets variables for tests with GCC 6.4.0.
+#
+init_gcc640()
+{
+  init_env_mods
+  switch_for_module gcc/6.4.0 openmpi/2.0.2p1_hpcx-gcc64
+
+  CC=gcc
+  CXX=g++
+  FC=gfortran
+  MPICC=mpicc
+  MPIFC=mpif90
+  MPI_LAUNCH="$(which mpirun)"
+
+  GRIBAPI_ROOT='/sw/rhel6-x64/grib_api/grib_api-1.15.0-gcc48'
+  NETCDF_ROOT='/sw/rhel6-x64/netcdf/netcdf_c-4.4.0-parallel-openmpi2-gcc64'
+  PPM_ROOT='/work/mh0287/m300488/cdi-pio-sw/ppm-1.0.6-gcc64'
+  YAXT_ROOT='/work/mh0287/m300488/cdi-pio-sw/yaxt-0.9.0-gcc64'
+}
+
+#
+# Sets variables for tests with Intel 17.0.6.
+#
+init_intel1706()
+{
+  init_env_mods
+  switch_for_module gcc/6.4.0 intel/17.0.6 openmpi/2.0.2p1_hpcx-intel14
+
+  CC=icc
+  CXX=icpc
+  FC=ifort
+  MPICC=mpicc
+  MPIFC=mpif90
+  MPI_LAUNCH="$(which mpirun)"
+
+  GRIBAPI_ROOT='/sw/rhel6-x64/grib_api/grib_api-1.15.0-gcc48'
+  NETCDF_ROOT='/sw/rhel6-x64/netcdf/netcdf_c-4.4.0-parallel-openmpi2-intel14'
+  PPM_ROOT='/work/mh0287/m300488/cdi-pio-sw/ppm-1.0.6-intel17'
+  YAXT_ROOT='/work/mh0287/m300488/cdi-pio-sw/yaxt-0.9.0-intel17'
+
+  # Here we fix a never-ending story with Libtool overlinkning, absence of
+  # '*.la' files when they could help, and '-Wl,--disable/enable-new-dtags':
+  PNETCDF_ROOT='/sw/rhel6-x64/netcdf/parallel_netcdf-1.6.1-openmpi2-intel14'
+  export LD_LIBRARY_PATH="${PNETCDF_ROOT}/lib:${LD_LIBRARY_PATH-}"
+}
+
+#
+# Sets variables for tests with NAG 6.2.6223.
+#
+init_nag626223()
+{
+  init_env_mods
+  switch_for_module gcc/6.4.0 nag/6.2
+
+  # There is no environment module for MPICH:
+  MPICH_ROOT='/mnt/lustre01/work/k20200/sw/spack/opt/spack/linux-rhel6-x86_64/nag-6.2/mpich-3.2.1-zxw7jhgz7qk4kim5jtziybfzigtiauxj'
+  export PATH="${MPICH_ROOT}/bin:${PATH-}"
+
+  CC=gcc
+  CXX=g++
+  FC=nagfor
+  MPICC=mpicc
+  MPIFC=mpif90
+  MPI_LAUNCH="$(which mpirun)"
+
+  ECCODES_ROOT='/mnt/lustre01/work/k20200/sw/spack/opt/spack/linux-rhel6-x86_64/nag-6.2/eccodes-2.5.0-givay23bqhgzreuk5um2wtjsumebwbt4'
+  NETCDF_ROOT='/mnt/lustre01/work/k20200/sw/spack/opt/spack/linux-rhel6-x86_64/gcc-8.3.0-works/netcdf-4.7.0-eftv5u36ogb5awbb27hffiiv5rib4kqj'
+  PPM_ROOT='/work/mh0287/m300488/cdi-pio-sw/ppm-1.0.6-nag62'
+  YAXT_ROOT='/work/mh0287/m300488/cdi-pio-sw/yaxt-0.9.0-nag62'
+
+  # Here we fix a never-ending story with Libtool overlinkning, absence of
+  # '*.la' files when they could help, and '-Wl,--disable/enable-new-dtags':
+  export LD_LIBRARY_PATH="${ECCODES_ROOT}/lib:${LD_LIBRARY_PATH-}"
+}
+
+#
+# Sets variables for tests with PGI 19.9.0.
+#
+init_pgi1990()
+{
+  init_env_mods
+  switch_for_module pgi/19.9-spack openmpi/2.0.2p2-pgi-19.9
+
+  CC=pgcc
+  CXX=pgc++
+  FC=pgfortran
+  MPICC=mpicc
+  MPIFC=mpif90
+  MPI_LAUNCH="$(which orterun)"
+
+  ECCODES_ROOT='/sw/spack-rhel6/eccodes-2.19.1-cqlkd7'
+  NETCDF_ROOT='/sw/spack-rhel6/netcdf-c-4.7.4-22ody2'
+  PPM_ROOT='/work/mh0287/m300488/cdi-pio-sw/ppm-1.0.6-pgi19'
+  YAXT_ROOT='/work/mh0287/m300488/cdi-pio-sw/yaxt-0.9.0-pgi19'
+
+  # Here we fix a never-ending story with Libtool overlinkning, absence of
+  # '*.la' files when they could help, and '-Wl,--disable/enable-new-dtags':
+  HDF5_ROOT='/sw/spack-rhel6/hdf5-1.10.7-xynrbi'
+  export LD_LIBRARY_PATH="${ECCODES_ROOT}/lib64:${NETCDF_ROOT}/lib:${HDF5_ROOT}/lib:${LD_LIBRARY_PATH-}"
+}
+
+#
+# Accepts a path to a file containing standard output of the 'make check'
+# command and checks whether all tests were run and passed.
+#
+check_all_tests_passed ()
+{
+  awk '/^# TOTAL: /{ total=$3 };
+       /^# PASS: /{ pass=$3 };
+       END {
+         if ( total == "" || total != pass ) {
+           print "ERROR: the total number of tests is not equal to the number of passed tests";
+           exit 1;
+         }
+       }' $1 >&2
+}