Started by an SCM change Obtained jenkins_tests/clubb_basic_full_run/Jenkinsfile from git https://github.com/larson-group/clubb.git [Pipeline] Start of Pipeline [Pipeline] stage [Pipeline] { (Full model runs) [Pipeline] parallel [Pipeline] { (Branch: All standard cases: gfortran debug) [Pipeline] { (Branch: All standard cases: nvfortran debug) [Pipeline] stage [Pipeline] { (All standard cases: gfortran debug) [Pipeline] stage [Pipeline] { (All standard cases: nvfortran debug) [Pipeline] node [Pipeline] node Still waiting to schedule task Waiting for next available executor Still waiting to schedule task Waiting for next available executor Running on nelson in /home/jenkins/workspace/clubb_basic_full_run [Pipeline] { [Pipeline] checkout The recommended git tool is: git Wiping out workspace first. Cloning the remote Git repository Cloning repository https://github.com/larson-group/clubb.git > git init /home/jenkins/workspace/clubb_basic_full_run # timeout=10 Fetching upstream changes from https://github.com/larson-group/clubb.git > git --version # timeout=10 > git --version # 'git version 2.43.0' using GIT_ASKPASS to set credentials larsongroupsysadmin github token > git fetch --tags --force --progress -- https://github.com/larson-group/clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch Checking out Revision c47faf30cea562966e64eedc259a5074c6cf89b1 (refs/remotes/origin/master) > git config remote.origin.url https://github.com/larson-group/clubb.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/master^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f c47faf30cea562966e64eedc259a5074c6cf89b1 # timeout=10 Commit message: "Restore missing debug printouts in JAX core (#1390)" > git rev-list --no-walk 09499c45d0ef25810f48bbd43c8f92afa1497caa # timeout=10 [Pipeline] withEnv [Pipeline] { [Pipeline] catchError [Pipeline] { [Pipeline] sh + source /etc/profile.d/larson-group.sh ++ export GIT_EDITOR=vi ++ GIT_EDITOR=vi ++ export SVN_EDITOR=vi ++ SVN_EDITOR=vi ++ export OMP_STACKSIZE=1048579 ++ OMP_STACKSIZE=1048579 ++ export LMOD_ROOT=/opt/lmod/ ++ LMOD_ROOT=/opt/lmod/ ++ . /opt/lmod//lmod/lmod/init/profile +++ '[' -z '' ']' +++ LMOD_ALLOW_ROOT_USE=yes +++ '[' -n '' ']' +++ '[' yes '!=' yes ']' +++ '[' -z '' ']' +++ export MODULEPATH_ROOT=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles +++ MODULEPATH_ROOT=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles +++ export USER=jenkins +++ USER=jenkins ++++ uname +++ export LMOD_sys=Linux +++ LMOD_sys=Linux +++ '[' -z '' ']' +++ '[' -f /etc/lmod/.modulespath ']' +++ LMOD_MODULEPATH_INIT=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/.modulespath +++ '[' -f /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/.modulespath ']' ++++ /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/libexec/addto --append MODULEPATH /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Linux /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Core +++ export MODULEPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Linux:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Core +++ MODULEPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Linux:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Core ++++ /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/libexec/addto --append MODULEPATH /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/modulefiles/Core +++ export MODULEPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Linux:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Core:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/modulefiles/Core +++ MODULEPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Linux:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/modulefiles/Core:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/modulefiles/Core +++ '[' -n '' ']' +++ export BASH_ENV=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash +++ BASH_ENV=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash +++ '[' -z '' ']' +++ export MANPATH=: +++ MANPATH=: ++++ /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/libexec/addto MANPATH /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/share/man +++ export MANPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/share/man: +++ MANPATH=/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/share/man: +++ findExec READLINK_CMD /usr/bin/readlink readlink +++ Nm=READLINK_CMD +++ confPath=/usr/bin/readlink +++ execNm=readlink +++ eval READLINK_CMD=/usr/bin/readlink ++++ READLINK_CMD=/usr/bin/readlink +++ '[' '!' -x /usr/bin/readlink ']' +++ unset Nm confPath execNm +++ findExec PS_CMD /usr/bin/ps ps +++ Nm=PS_CMD +++ confPath=/usr/bin/ps +++ execNm=ps +++ eval PS_CMD=/usr/bin/ps ++++ PS_CMD=/usr/bin/ps +++ '[' '!' -x /usr/bin/ps ']' +++ unset Nm confPath execNm +++ findExec EXPR_CMD /usr/bin/expr expr +++ Nm=EXPR_CMD +++ confPath=/usr/bin/expr +++ execNm=expr +++ eval EXPR_CMD=/usr/bin/expr ++++ EXPR_CMD=/usr/bin/expr +++ '[' '!' -x /usr/bin/expr ']' +++ unset Nm confPath execNm +++ findExec BASENAME_CMD /usr/bin/basename basename +++ Nm=BASENAME_CMD +++ confPath=/usr/bin/basename +++ execNm=basename +++ eval BASENAME_CMD=/usr/bin/basename ++++ BASENAME_CMD=/usr/bin/basename +++ '[' '!' -x /usr/bin/basename ']' +++ unset Nm confPath execNm +++ unset -f findExec +++ '[' -f /proc/41398/exe ']' ++++ /usr/bin/readlink /proc/41398/exe +++ my_shell=/usr/bin/bash ++++ /usr/bin/expr /usr/bin/bash : '-*\(.*\)' +++ my_shell=/usr/bin/bash ++++ /usr/bin/basename /usr/bin/bash +++ my_shell=bash +++ case ${my_shell} in +++ '[' -f /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash ']' +++ . /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash ++++ '[' -z '' ']' ++++ case "$-" in ++++ __lmod_vx=x ++++ '[' -n x ']' ++++ set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-qorv6nkkjzyzntx6wbjupmoxrot26t6r/lmod/lmod/init/bash) Shell debugging restarted ++++ unset __lmod_vx +++ unset my_shell PS_CMD EXPR_CMD BASENAME_CMD MODULEPATH_INIT LMOD_ALLOW_ROOT_USE READLINK_CMD +++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit ++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core ++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core + module load gcc netcdf-fortran + '[' -z '' ']' + case "$-" in + __lmod_sh_dbg=x + '[' -n x ']' + set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output Lmod Warning: ------------------------------------------------------------------------------- The following dependent module(s) are not currently loaded: gcc-runtime/13.1.0-wiuv7wc (required by: mpich/4.2.1, hdf5/1.14.3-cb5lzz7, netcdf-c/4.9.2, netcdf-fortran/4.5.3), glibc/2.35-tdr5czg (required by: mpich/4.2.1, hdf5/1.14.3-cb5lzz7, netcdf-c/4.9.2, netcdf-fortran/4.5.3) ------------------------------------------------------------------------------- Shell debugging restarted + unset __lmod_sh_dbg + return 0 + ./compile.py -debug -- The Fortran compiler identification is GNU 13.1.0 -- The C compiler identification is GNU 13.1.0 -- The CXX compiler identification is GNU 13.1.0 -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Check for working Fortran compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/gcc-13.1.0-ly4g5v5mnoe2su6clyt6sk674bfvfow2/bin/gfortran - skipped -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/gcc-13.1.0-ly4g5v5mnoe2su6clyt6sk674bfvfow2/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/gcc-13.1.0-ly4g5v5mnoe2su6clyt6sk674bfvfow2/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiling with double precision -- Performing Test NETCDF_ABI_COMPATIBLE -- Performing Test NETCDF_ABI_COMPATIBLE - Success -- SUCCESS: netcdf-fortran found. -- -> Library : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib/libnetcdff.so -- -> Modules : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/include -- Configuring done (2.0s) -- Generating done (0.2s) -- Build files have been written to: /home/jenkins/workspace/clubb_basic_full_run/build/gcc_DEBUG_PRECdouble Using inferred toolchain file: /home/jenkins/workspace/clubb_basic_full_run/cmake/toolchains/linux_x86_64_gcc.cmake Setting CLUBB installation dir: /home/jenkins/workspace/clubb_basic_full_run/build/gcc_DEBUG_PRECdouble Setting CLUBB installation dir: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble about to cmnake /home/jenkins/workspace/clubb_basic_full_run/build/gcc_DEBUG_PRECdouble Running CMake configure... [ 0%] Building Fortran object src/Lapack/Lapack_shared/CMakeFiles/clubb_lapack_shared.dir/lsame.f.o [ 0%] Building Fortran object src/Lapack/Lapack_shared/CMakeFiles/clubb_lapack_shared.dir/xerbla.f.o [ 0%] Building Fortran object src/Microphys/SCM_Activation/CMakeFiles/scm_activation_lib.dir/aer_ccn_act_k.F90.o [ 0%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/daxpy.f.o [ 0%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/ilaslc.f.o [ 1%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dasum.f.o [ 1%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dcopy.f.o [ 1%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/ddot.f.o [ 1%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbcon.f.o [ 1%] Built target clubb_lapack_shared [ 1%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/ilaslr.f.o [ 2%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/isamax.f.o [ 3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbequ.f.o [ 3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbmv.f.o [ 3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbrfs.f.o [ 3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbsv.f.o [ 3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sasum.f.o [ 3%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/saxpy.f.o [ 3%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbsvx.f.o [ 4%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtf2.f.o [ 4%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtrf.f.o [ 4%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgbtrs.f.o [ 4%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sdot.f.o [ 4%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/scopy.f.o [ 5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbcon.f.o [ 5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbequ.f.o [ 5%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgemm.f.o [ 5%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbmv.f.o [ 6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgemv.f.o [ 6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dger.f.o [ 6%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbrfs.f.o [ 6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtcon.f.o [ 6%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtrfs.f.o [ 7%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbsv.f.o [ 7%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtsv.f.o [ 7%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbsvx.f.o [ 7%] Linking Fortran static library libscm_activation_lib.a [ 7%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtf2.f.o [ 8%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtsvx.f.o [ 8%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtrf.f.o [ 8%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgttrf.f.o [ 8%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgbtrs.f.o [ 8%] Built target scm_activation_lib [ 9%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgemm.f.o [ 9%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgttrs.f.o [ 9%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dgtts2.f.o [ 9%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/disnan.f.o [ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlabad.f.o [ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlacn2.f.o [ 10%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgemv.f.o [ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlacpy.f.o [ 10%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlae2.f.o [ 11%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlaev2.f.o [ 11%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlagtm.f.o [ 11%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sger.f.o [ 11%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlaisnan.f.o [ 11%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlamch.f.o [ 11%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgtcon.f.o [ 11%] Building Fortran object src/Lapack/Lapack_double/CMakeFiles/clubb_lapack_double.dir/dlangb.f.o [ 12%] Building Fortran object src/Lapack/Lapack_single/CMakeFiles/clubb_lapack_single.dir/sgtrfs.f.o [ 13%] 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libnumerical_recipes_lib.a [ 80%] Built target numerical_recipes_lib [ 80%] Building Fortran object src/Radiation/CMakeFiles/radiation_lib.dir/radiation_module.F90.o [ 80%] Linking Fortran static library libradiation_lib.a [ 80%] Built target radiation_lib [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/hydrostatic_module.F90.o [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/input_names.F90.o [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/stat_file_module.F90.o [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/extrapolation.F90.o [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/__/readiopdata_core/readiopdata_core_module.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1038:15: 1038 | if(divT_in(i,nlev+1)==missing_value) divT_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1040:15: 1040 | if(vertdivT_in(i,nlev+1)==missing_value) vertdivT_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1042:15: 1042 | if(divT3d_in(i,nlev+1)==missing_value) divT3d_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1045:15: 1045 | if(divq_in(i,nlev+1)==missing_value) divq_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1047:15: 1047 | if(vertdivq_in(i,nlev+1)==missing_value) vertdivq_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1049:15: 1049 | if(divq3d_in(i,nlev+1)==missing_value) divq3d_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:356:13: 356 | if( ANY(Ts_in == 0.0) ) then | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:620:12: 620 | if(T_in(i,nlev+1)/=missing_value) then | 1 Warning: Inequality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:636:12: 636 | if(T_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:638:12: 638 | if(q_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:640:12: 640 | if(u_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:642:12: 642 | if(v_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:647:15: 647 | if(omega_in(i,nlev+1)==missing_value) omega_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:651:15: 651 | if(w_in(i,nlev+1)==missing_value) w_in(i,nlev+1) = & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:658:12: 658 | if(ug_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:660:12: 660 | if(vg_in(i,nlev+1)==missing_value) & | 1 Warning: Equality comparison for REAL(4) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1252:42: 1252 | character dim_name*( NF90_MAX_NAME ) | 1 Warning: Unused variable 'dim_name' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1254:33: 1254 | integer var_ndims, dim_size, dims_set, i, n, var_type | 1 Warning: Unused variable 'dim_size' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1254:43: 1254 | integer var_ndims, dim_size, dims_set, i, n, var_type | 1 Warning: Unused variable 'dims_set' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1254:46: 1254 | integer var_ndims, dim_size, dims_set, i, n, var_type | 1 Warning: Unused variable 'i' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1237:60: 1237 | subroutine get_netcdf_var2d_real( NCID, varName, ntime, nlev, & | 1 Warning: Unused dummy argument 'nlev' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1237:54: 1237 | subroutine get_netcdf_var2d_real( NCID, varName, ntime, nlev, & | 1 Warning: Unused dummy argument 'ntime' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1238:23: 1238 | var, use_NF90_REAL, status, required) | 1 Warning: Unused dummy argument 'use_nf90_real' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:1167:67: 1167 | subroutine get_netcdf_var1d_real( NCID, varName, var, use_NF90_REAL, & | 1 Warning: Unused dummy argument 'use_nf90_real' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:751:51: 751 | get_add_surface_data, ntime, & | 1 Warning: Unused dummy argument 'get_add_surface_data' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:750:81: 750 | subroutine readiopdata_core_sfc( masterproc, iopfilepath, scamiop_from_global_cam, SFC_FLX_FXD, & | 1 Warning: Unused dummy argument 'scamiop_from_global_cam' at (1) [-Wunused-dummy-argument] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:290:32: 290 | integer :: STATUS, i, n, nlat, nlon | 1 Warning: Unused variable 'nlat' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:290:38: 290 | integer :: STATUS, i, n, nlat, nlon | 1 Warning: Unused variable 'nlon' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_core/readiopdata_core_module.F90:291:19: 291 | integer :: varID, NCID | 1 Warning: Unused variable 'varid' declared at (1) [-Wunused-variable] [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/input_reader.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/input_reader.F90:498:28: 491 | do i=1, dim_grid | 2 ...... 498 | if ( grid(i) < grid(i-1) ) then | 1 Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2) [-Wdo-subscript] [ 80%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/input_netcdf.F90.o [ 81%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/stat_file_utils.F90.o [ 82%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/corr_varnce_input_reader.F90.o [ 82%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/input_interpret.F90.o [ 83%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/input_fields.F90.o [ 83%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/__/readiopdata_module.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_module.F90:260:16: 260 | integer :: k | 1 Warning: Unused variable 'k' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_module.F90:264:17: 264 | qtm_forcing ! Specified total water spec. humidity tendency [kg/kg/s] | 1 Warning: Unused variable 'qtm_forcing' declared at (1) [-Wunused-variable] /home/jenkins/workspace/clubb_basic_full_run/src/readiopdata_module.F90:243:31: 243 | subroutine readiopdata_frc( rtm, gr, thlm_forcing, rtm_forcing ) | 1 Warning: Unused dummy argument 'rtm' at (1) [-Wunused-dummy-argument] [ 83%] Building Fortran object src/Input_fields/CMakeFiles/input_fields_lib.dir/sounding.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:39:8: 39 | use constants_clubb, only: & | 1 Warning: Unused parameter 'kappa' which has been explicitly imported at (1) [-Wunused-parameter] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:57:8: 57 | use input_names, only: & | 1 Warning: Unused parameter 'omega_name' which has been explicitly imported at (1) [-Wunused-parameter] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:39:8: 39 | use constants_clubb, only: & | 1 Warning: Unused parameter 'p0' which has been explicitly imported at (1) [-Wunused-parameter] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:165:13: 165 | p_in_Pa, & ! Pressure [Pa] | 1 Warning: Array 'p_in_pa' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:160:8: 160 | rt, & ! Total water mixing ratio sounding [kg/kg] | 1 Warning: Array 'rt' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:166:10: 166 | subs ! Vertical velocity sounding [m/s or Pa/s] | 1 Warning: Array 'subs' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:159:11: 159 | theta, & ! Liquid potential temperature sounding [K] | 1 Warning: Array 'theta' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:161:7: 161 | u, & ! u wind sounding [m/s] | 1 Warning: Array 'u' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:163:8: 163 | ug, & ! u geostrophic wind sounding [m/s] | 1 Warning: Array 'ug' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:162:7: 162 | v, & ! v wind sounding [m/s] | 1 Warning: Array 'v' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:164:8: 164 | vg, & ! v geostrophic wind sounding [m/s] | 1 Warning: Array 'vg' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] /home/jenkins/workspace/clubb_basic_full_run/src/Input_fields/sounding.F90:158:7: 158 | z, & ! Altitude [m] | 1 Warning: Array 'z' at (1) is larger than limit set by '-fmax-stack-var-size=', moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the '-fmax-stack-var-size=' limit (or use '-frecursive', which implies unlimited '-fmax-stack-var-size') - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising] [ 83%] Linking Fortran static library libinput_fields_lib.a [ 83%] Built target input_fields_lib [ 83%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/KK_integrals_tests.F90.o [ 84%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/diag_ustar_module.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/corr_cholesky_mtx_tests.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/Nc_Ncn_test.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/cubic_solve_tests.F90.o [ 84%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/parameters_microphys.F90.o [ 84%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/sfc_flux.F90.o [ 84%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/cloud_sed_module.F90.o [ 84%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/spec_hum_to_mixing_ratio.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/cubic_solve_tests.F90:179:16: 179 | if ( any( aimag( roots_cmp(k,:) ) /= zero ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] [ 84%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/silhs_category_variance_module.F90.o [ 84%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/wangara.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/fill_holes_tests.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/hole_filling_tests.F90.o [ 84%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/mu_sigma_hm_tests.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:407:27: 407 | .or. any( field(:,upper_hf_level:nz) /= field(:,upper_hf_level:nz) ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:406:22: 406 | if ( any( field(:,1:lower_hf_level) /= field(:,1:lower_hf_level) ) & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:462:22: 462 | if ( any( field_rev_rev /= field ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:221:27: 221 | .or. any( field(:,upper_hf_level:nz) /= field(:,upper_hf_level:nz) ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:220:22: 220 | if ( any( field(:,1:lower_hf_level) /= field(:,1:lower_hf_level) ) & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/G_unit_test_types/fill_holes_tests.F90:275:22: 275 | if ( any( field_rev_rev /= field ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] [ 85%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/read_corr_mtx_test.F90.o [ 86%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/ekman.F90.o [ 86%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/gfdl_activation.F90.o [ 87%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/gabls2.F90.o [ 87%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/gabls3.F90.o [ 87%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/ice_dfsn_module.F90.o [ 87%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/rev_direction_grid_test.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/Microphys/ice_dfsn_module.F90:282:27: 214 | do k = gr%nzt, 1, -1 | 2 ...... 282 | mass_ice_cryst(i,k-1) = mass_ice_cryst(i,k) + dmass_ice_cryst(i,k) | 1 Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2) [-Wdo-subscript] /home/jenkins/workspace/clubb_basic_full_run/src/Microphys/ice_dfsn_module.F90:296:27: 214 | do k = gr%nzt, 1, -1 | 2 ...... 296 | mass_ice_cryst(i,k-1) = mass_ice_cryst(i,k) | 1 Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2) [-Wdo-subscript] [ 87%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/lba.F90.o [ 87%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/silhs_category_test.F90.o [ 88%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/neutral_case.F90.o [ 88%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/mixed_moment_PDF_integrals.F90.o [ 88%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/smooth_heaviside_tests.F90.o [ 88%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/coamps_microphys_driver_module.F90.o [ 89%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/smooth_min_max_tests.F90.o [ 89%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/time_dependent_input.F90.o [ 89%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/spurious_source_test.F90.o [ 90%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/tuner_tests.F90.o [ 91%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/morrison_microphys_module.F90.o [ 91%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/w_up_in_cloud_tests.F90.o [ 91%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/microphys_init_cleanup.F90.o [ 92%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/pdf_hydromet_microphys_wrapper.F90.o [ 92%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/advance_microphys_module.F90.o [ 92%] Building Fortran object src/G_unit_test_types/CMakeFiles/G_unit_test_lib.dir/pdf_parameter_tests.F90.o [ 92%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm.F90.o [ 92%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_0003.F90.o [ 93%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_3year.F90.o [ 93%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/arm_97.F90.o [ 93%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/astex_a209.F90.o [ 93%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/atex.F90.o [ 93%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/atex_long.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/bomex.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/Benchmark_cases/bomex.F90:22:48: 22 | gr, rtm, l_readiopdata, & | 1 Warning: Unused dummy argument 'l_readiopdata' at (1) [-Wunused-dummy-argument] [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/clex9_nov02.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/clex9_oct14.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/cloud_feedback.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/cobra.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/dycoms2_rf01.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/dycoms2_rf02.F90.o nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/fire.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/gabls3_night.F90.o [ 94%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/jun25.F90.o [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/mpace_a.F90.o [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/mpace_b.F90.o [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/nov11.F90.o [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/rico.F90.o [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/twp_ice.F90.o [ 95%] Linking Fortran static library libG_unit_test_lib.a [ 95%] Built target G_unit_test_lib [ 95%] Building Fortran object src/Benchmark_cases/CMakeFiles/benchmark_cases_lib.dir/prescribe_forcings.F90.o [ 95%] Linking Fortran static library libbenchmark_cases_lib.a [ 95%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/KK_microphys_module.F90.o [ 95%] Built target benchmark_cases_lib [ 95%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/estimate_scm_microphys_module.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/lh_microphys_driver_module.F90.o [ 96%] Building Fortran object src/Microphys/CMakeFiles/microphys_lib.dir/microphys_driver.F90.o [ 96%] Linking Fortran static library libmicrophys_lib.a [ 96%] Built target microphys_lib [ 96%] Building Fortran object src/CMakeFiles/G_unit_tests.dir/G_unit_tests.F90.o [ 97%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/generalized_grid_test.F90.o [ 98%] Linking Fortran executable G_unit_tests [ 98%] Built target G_unit_tests [ 98%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/clubb_driver.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/clubb_driver.F90:5542:76: 5542 | p_sfc, rtm_sfc, rtm, l_readiopdata, & !thlm_sfc, & | 1 Warning: Unused dummy argument 'l_readiopdata' at (1) [-Wunused-dummy-argument] [ 98%] Building Fortran object src/CMakeFiles/clubb_driver_lib.dir/clubb_loss_driver.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver.F90:255:28: 255 | is_finite_core_value = ( value == value ) .and. ( abs( value ) <= huge( value ) ) | 1 Warning: Equality comparison for REAL(8) at (1) [-Wcompare-reals] [ 98%] Linking Fortran static library libclubb_driver_lib.a [ 98%] Built target clubb_driver_lib [ 98%] Building Fortran object src/CMakeFiles/clubb_standalone.dir/clubb_standalone.F90.o [ 98%] Building Fortran object src/CMakeFiles/clubb_driver_test.dir/clubb_driver_test.F90.o [ 98%] Building Fortran object src/CMakeFiles/clubb_loss_driver_test.dir/clubb_loss_driver_test.F90.o [ 99%] Building Fortran object src/CMakeFiles/clubb_standalone_loss.dir/clubb_standalone_loss.F90.o [100%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/error.F90.o [100%] Building Fortran object src/CMakeFiles/clubb_thread_test.dir/clubb_thread_test.F90.o /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:273:14: 273 | if ( any( test_scaled_rmse /= reference_scaled_rmse ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:278:14: 278 | if ( any( test_correlation /= reference_correlation ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:283:14: 283 | if ( any( test_std_ratio /= reference_std_ratio ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:288:14: 288 | if ( any( test_centered_rmse_norm /= reference_centered_rmse_norm ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:293:14: 293 | if ( any( test_bias_norm /= reference_bias_norm ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:512:14: 512 | if ( any( clubb_params_all_1 /= clubb_params_all_2 ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:521:14: 521 | any( reinit_bias_norm_1 /= reinit_bias_norm_2 ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:520:14: 520 | any( reinit_centered_rmse_norm_1 /= reinit_centered_rmse_norm_2 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:519:14: 519 | any( reinit_std_ratio_1 /= reinit_std_ratio_2 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:518:14: 518 | any( reinit_correlation_1 /= reinit_correlation_2 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:517:14: 517 | if ( any( reinit_scaled_rmse_1 /= reinit_scaled_rmse_2 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:431:14: 431 | if ( all( tweaked_scaled_rmse == reference_scaled_rmse ) ) then | 1 Warning: Equality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:371:14: 371 | any( manual_bias_norm_2 /= manual_bias_norm_1 ) ) then | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:370:14: 370 | any( manual_centered_rmse_norm_2 /= manual_centered_rmse_norm_1 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:369:14: 369 | any( manual_std_ratio_2 /= manual_std_ratio_1 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:368:14: 368 | any( manual_correlation_2 /= manual_correlation_1 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] /home/jenkins/workspace/clubb_basic_full_run/src/clubb_loss_driver_test.F90:367:14: 367 | if ( any( manual_scaled_rmse_2 /= manual_scaled_rmse_1 ) .or. & | 1 Warning: Inequality comparison for REAL(8) at (1) [-Wcompare-reals] [100%] Linking Fortran executable clubb_thread_test [100%] Linking Fortran executable clubb_standalone [100%] Linking Fortran executable clubb_driver_test [100%] Linking Fortran executable clubb_standalone_loss [100%] Built target clubb_thread_test [100%] Built target clubb_standalone_loss [100%] Built target clubb_standalone [100%] Built target clubb_driver_test [100%] Building Fortran object src/CMakeFiles/clubb_tuner.dir/clubb_tuner.F90.o [100%] Linking Fortran executable clubb_loss_driver_test [100%] Linking Fortran executable clubb_tuner [100%] Built target clubb_loss_driver_test [100%] Built target clubb_tuner Install the project... -- Install configuration: "Debug" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/libclubb_driver_lib.a -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_tuner -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_tuner" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/G_unit_tests -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/G_unit_tests" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_thread_test -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_thread_test" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_standalone -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_standalone" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_driver_test -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_driver_test" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_standalone_loss -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_standalone_loss" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_loss_driver_test -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/clubb_loss_driver_test" to "/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/gcc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-13.1.0/netcdf-fortran-4.5.3-zcsi7k5jxdw7dz5ufpdkyk6ovim7ebwe/lib" CLUBBStandardsCheck.py: beginning check on src PASS: 0 checks failed for src CLUBBStandardsCheck.py: beginning check on src/CLUBB_core PASS: 0 checks failed for src/CLUBB_core CLUBBStandardsCheck.py: beginning check on src/SILHS PASS: 0 checks failed for src/SILHS CLUBBStandardsCheck.py: beginning check on src/Benchmark_cases PASS: 0 checks failed for src/Benchmark_cases CLUBBStandardsCheck.py: beginning check on src/Radiation PASS: 0 checks failed for src/Radiation CLUBBStandardsCheck.py: beginning check on src/Microphys PASS: 0 checks failed for src/Microphys CLUBBStandardsCheck.py: beginning check on src/Microphys/KK_microphys PASS: 0 checks failed for src/Microphys/KK_microphys CLUBBStandardsCheck.py: beginning check on src/G_unit_test_types PASS: 0 checks failed for src/G_unit_test_types Build completed successfully, and all source code checks passed. + ulimit -s 8388608 + run_scripts/run_scm_all.py -workers 8 Performing standard run Using 8 process(es) Cases to run: arm, arm_97, astex_a209, atex, bomex, cgils_s6, cgils_s11, cgils_s12, clex9_nov02, clex9_oct14, dycoms2_rf01, dycoms2_rf01_fixed_sst, dycoms2_rf02_do, dycoms2_rf02_ds, dycoms2_rf02_nd, dycoms2_rf02_so, fire, gabls2, gabls3, gabls3_night, jun25_altocu, lba, mc3e, mpace_a, mpace_b, mpace_b_silhs, nov11_altocu, rico, rico_silhs, twp_ice, wangara nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online Running on overlie in /home/jenkins/workspace/clubb_basic_full_run [Pipeline] { [Pipeline] checkout The recommended git tool is: git Wiping out workspace first. Cloning the remote Git repository Cloning repository https://github.com/larson-group/clubb.git > git init /home/jenkins/workspace/clubb_basic_full_run # timeout=10 Fetching upstream changes from https://github.com/larson-group/clubb.git > git --version # timeout=10 > git --version # 'git version 2.43.0' using GIT_ASKPASS to set credentials larsongroupsysadmin github token > git fetch --tags --force --progress -- https://github.com/larson-group/clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/larson-group/clubb.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online Avoid second fetch > git rev-parse refs/remotes/origin/master^{commit} # timeout=10 Checking out Revision c47faf30cea562966e64eedc259a5074c6cf89b1 (refs/remotes/origin/master) nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online > git config core.sparsecheckout # timeout=10 > git checkout -f c47faf30cea562966e64eedc259a5074c6cf89b1 # timeout=10 Commit message: "Restore missing debug printouts in JAX core (#1390)" [Pipeline] withEnv [Pipeline] { [Pipeline] catchError [Pipeline] { nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online [Pipeline] sh nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online + source /etc/profile.d/larson-group.sh ++ export GIT_EDITOR=vi ++ GIT_EDITOR=vi ++ export SVN_EDITOR=vi ++ SVN_EDITOR=vi ++ export OMP_STACKSIZE=1048579 ++ OMP_STACKSIZE=1048579 ++ export LMOD_ROOT=/opt/lmod/ ++ LMOD_ROOT=/opt/lmod/ ++ source /opt/lmod//lmod/lmod/init/bash +++ '[' -z '' ']' +++ case "$-" in +++ __lmod_vx=x +++ '[' -n x ']' +++ set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for this output (/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/lmod-8.7.37-fq24mybyn2li6got2bxzk62ejh5d3p4z/lmod/lmod/init/bash) Shell debugging restarted +++ unset __lmod_vx +++ find /usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core -print -quit ++ export MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core ++ MODULEPATH=/usr/local/spack/share/spack/lmod/linux-pop22-x86_64/Core + module load nvhpc netcdf-fortran + '[' -z '' ']' + case "$-" in + __lmod_sh_dbg=x + '[' -n x ']' + set +x Shell debugging temporarily silenced: export LMOD_SH_DBG_ON=1 for Lmod's output Shell debugging restarted + unset __lmod_sh_dbg + return 0 + ./compile.py -debug -- Configuring for CPU build -- Configuring for CPU build -- The Fortran compiler identification is NVHPC 24.3.0 -- The C compiler identification is NVHPC 24.3.0 -- The CXX compiler identification is NVHPC 24.3.0 -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Check for working Fortran compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/nvhpc-24.3-empnja5cpzevpwiw664fzpypwmcsyvh2/Linux_x86_64/24.3/compilers/bin/nvfortran - skipped -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/nvhpc-24.3-empnja5cpzevpwiw664fzpypwmcsyvh2/Linux_x86_64/24.3/compilers/bin/nvc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/gcc-12.2.0/nvhpc-24.3-empnja5cpzevpwiw664fzpypwmcsyvh2/Linux_x86_64/24.3/compilers/bin/nvc++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Compiling with double precision -- Performing Test NETCDF_ABI_COMPATIBLE -- Performing Test NETCDF_ABI_COMPATIBLE - Success -- SUCCESS: netcdf-fortran found. -- -> Library : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/lib/libnetcdff.so -- -> Modules : /usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/include -- Configuring done (2.1s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: NetCDF_C_INCLUDE_DIR NetCDF_C_LIBRARY NetCDF_Fortran_INCLUDE_DIR NetCDF_Fortran_LIBRARY -- Build files have been written to: /home/jenkins/workspace/clubb_basic_full_run/build/nvhpc_DEBUG_PRECdouble Using inferred toolchain file: /home/jenkins/workspace/clubb_basic_full_run/cmake/toolchains/linux_x86_64_nvhpc.cmake Setting CLUBB installation dir: /home/jenkins/workspace/clubb_basic_full_run/build/nvhpc_DEBUG_PRECdouble Setting CLUBB installation dir: /home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble about to cmnake /home/jenkins/workspace/clubb_basic_full_run/build/nvhpc_DEBUG_PRECdouble Running CMake configure... 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"/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_driver_test -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_driver_test" to "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_standalone_loss -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_standalone_loss" to "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/lib" -- Installing: /home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_loss_driver_test -- Set non-toolchain portion of runtime path of "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/clubb_loss_driver_test" to "/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib:/home/jenkins/workspace/clubb_basic_full_run/install/nvhpc_DEBUG_PRECdouble/lib64:/usr/local/spack/opt/spack/linux-pop22-skylake_avx512/nvhpc-24.3/netcdf-fortran-4.5.3-yx2farr5afrrmep3vdkk2p6zdeshpybm/lib" CLUBBStandardsCheck.py: beginning check on src PASS: 0 checks failed for src CLUBBStandardsCheck.py: beginning check on src/CLUBB_core PASS: 0 checks failed for src/CLUBB_core CLUBBStandardsCheck.py: beginning check on src/SILHS PASS: 0 checks failed for src/SILHS CLUBBStandardsCheck.py: beginning check on src/Benchmark_cases PASS: 0 checks failed for src/Benchmark_cases CLUBBStandardsCheck.py: beginning check on src/Radiation PASS: 0 checks failed for src/Radiation CLUBBStandardsCheck.py: beginning check on src/Microphys PASS: 0 checks failed for src/Microphys CLUBBStandardsCheck.py: beginning check on src/Microphys/KK_microphys PASS: 0 checks failed for src/Microphys/KK_microphys CLUBBStandardsCheck.py: beginning check on src/G_unit_test_types PASS: 0 checks failed for src/G_unit_test_types Build completed successfully, and all source code checks passed. + ulimit -s 8388608 + run_scripts/run_scm_all.py -workers 8 Performing standard run Using 8 process(es) Cases to run: arm, arm_97, astex_a209, atex, bomex, cgils_s6, cgils_s11, cgils_s12, clex9_nov02, clex9_oct14, dycoms2_rf01, dycoms2_rf01_fixed_sst, dycoms2_rf02_do, dycoms2_rf02_ds, dycoms2_rf02_nd, dycoms2_rf02_so, fire, gabls2, gabls3, gabls3_night, jun25_altocu, lba, mc3e, mpace_a, mpace_b, mpace_b_silhs, nov11_altocu, rico, rico_silhs, twp_ice, wangara nelson is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online COMPLETE -- bomex COMPLETE -- atex COMPLETE -- arm COMPLETE -- clex9_nov02 COMPLETE -- dycoms2_rf01 COMPLETE -- dycoms2_rf01_fixed_sst COMPLETE -- clex9_oct14 COMPLETE -- dycoms2_rf02_nd COMPLETE -- dycoms2_rf02_so COMPLETE -- fire COMPLETE -- dycoms2_rf02_do COMPLETE -- dycoms2_rf02_ds COMPLETE -- cgils_s11 COMPLETE -- cgils_s12 COMPLETE -- astex_a209 COMPLETE -- cgils_s6 COMPLETE -- jun25_altocu COMPLETE -- gabls3_night COMPLETE -- mpace_b COMPLETE -- mpace_b_silhs COMPLETE -- gabls3 COMPLETE -- nov11_altocu COMPLETE -- lba COMPLETE -- rico COMPLETE -- wangara COMPLETE -- rico_silhs COMPLETE -- gabls2 COMPLETE -- mpace_a COMPLETE -- twp_ice COMPLETE -- arm_97 COMPLETE -- mc3e =================== Runs Complete =================== All cases ran to completion. nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie is back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online nelson seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online nelson is back online [Pipeline] } [Pipeline] // catchError [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] } [Pipeline] // stage [Pipeline] } overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (java.lang.InterruptedException); will wait for 5 min 0 sec for it to come back online overlie is back online overlie seems to be removed or offline (hudson.remoting.RequestAbortedException: hudson.remoting.Channel$OrderlyShutdown: Command Close created at); will wait for 5 min 0 sec for it to come back online overlie has been removed or offline for 5 min 0 sec; assuming it is not coming back, and terminating shell step [Pipeline] } Timeout waiting for agent to come back org.jenkinsci.plugins.workflow.actions.ErrorAction$ErrorId: 83ad9ce8-53ae-4a40-8fb1-7454a5cdb1da Setting overall build result to ABORTED [Pipeline] // catchError [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // parallel [Pipeline] } [Pipeline] // stage [Pipeline] End of Pipeline Finished: ABORTED