Started by user Keegan Rhodes
Obtained jenkins_tests/sam_clubb_silhs_build/Jenkinsfile from git https://github.com/larson-group/sam_clubb.git
Running in Durability level: MAX_SURVIVABILITY
[Pipeline] Start of Pipeline
[Pipeline] node
Running on Jenkins in /home/jenkins/workspace/sam_clubb_silhs_gfortran_build
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Declarative: Checkout SCM)
[Pipeline] checkout
The recommended git tool is: git
Cloning the remote Git repository
Cloning repository https://github.com/larson-group/sam_clubb.git
 > git init /home/jenkins/workspace/sam_clubb_silhs_gfortran_build # timeout=10
Fetching upstream changes from https://github.com/larson-group/sam_clubb.git
 > git --version # timeout=10
 > git --version # 'git version 1.8.3.1'
using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021
 > git fetch --tags --progress https://github.com/larson-group/sam_clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/larson-group/sam_clubb.git # timeout=10
 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
 > git rev-parse refs/remotes/origin/changes_to_not_break^{commit} # timeout=10
Checking out Revision 184a06df2d3975fc22f9445e4085495429922e31 (refs/remotes/origin/changes_to_not_break)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 184a06df2d3975fc22f9445e4085495429922e31 # timeout=10
Commit message: "Defining gr at the top level main as a local variable and feeding it down as needed. Additionally, the file grid had to be changed to grid_config in order to avoid conflicts between the type grid in grid_class and the module named grid. Sam compiles."
 > git rev-list --no-walk cd913c4e9a5aee64f91e7db20c12bd69f63e1a9a # timeout=10
[Pipeline] }
[Pipeline] // stage
[Pipeline] withEnv
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Edit Makefile)
[Pipeline] sh
+ sed -i 's/FFLAGS += -I.*/FFLAGS += -I${INC_MPI} -I${INC_NETCDF} -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART/g' Makefile
+ vim Makefile '+%s/# {nightly gfortran} DO NOT REMOVE THIS LINE\n#ifeq ($(PLATFORM),Linux)\nifeq ($(PLATFORM),NOTNOT) # Change to line above to use/# {nightly gfortran} DO NOT REMOVE THIS LINE\rifeq ($(PLATFORM),Linux)\r#ifeq ($(PLATFORM),NOTNOT) # Change to line above to use/g' +wqall
Vim: Warning: Output is not to a terminal
Vim: Warning: Input is not from a terminal
"Makefile" 707L, 24342C

Error detected while processing command line:

E486: Pattern not found: # {nightly gfortran} DO NOT REMOVE THIS LINE\n#ifeq ($

(PLATFORM),Linux)\nifeq ($(PLATFORM),NOTNOT) # Change to line above to use

+ vim Makefile '+%s/# {nightly pgi} DO NOT REMOVE THIS LINE\nifeq ($(PLATFORM),Linux)\n#ifeq ($(PLATFORM),NOTNOT) # Change to line above to use/# {nightly pgi} DO NOT REMOVE THIS LINE\r#ifeq ($(PLATFORM),Linux)\rifeq ($(PLATFORM),NOTNOT) # Change to line above to use/g' +wqall
Vim: Warning: Output is not to a terminal
Vim: Warning: Input is not from a terminal
"Makefile" 707L, 24342C

Error detected while processing command line:

E486: Pattern not found: # {nightly pgi} DO NOT REMOVE THIS LINE\nifeq ($(PLATF

ORM),Linux)\n#ifeq ($(PLATFORM),NOTNOT) # Change to line above to use

[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Edit Default Case)
[Pipeline] sh
+ sed -i 's/nstop.*/nstop   = 6,/g' DYCOMS_RF02/prm
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Compile)
[Pipeline] sh
+ ./Build
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_2D ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_2D
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_2D
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_3D ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_3D
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_3D
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOMENTS ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOMENTS
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOMENTS
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_STAT ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_STAT
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_STAT
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOVIES ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOVIES
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOVIES
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/RESTART ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/RESTART
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/RESTART
if ! ( -d /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ ) mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ
mkdir /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ
if ! ( -d OUT_2D ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_2D OUT_2D
if ! ( -d OUT_3D ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_3D OUT_3D
if ! ( -d OUT_MOMENTS ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOMENTS OUT_MOMENTS
if ! ( -d OUT_STAT ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_STAT OUT_STAT
if ! ( -d OUT_MOVIES ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OUT_MOVIES OUT_MOVIES
if ! ( -d RESTART ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/RESTART RESTART
if ! ( -d OBJ ) ln -s /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ OBJ
cat
if ( -e /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ/MICRO_RAD_OPTIONS ) then
mv -f MICRO_RAD_OPTIONS.new /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ/MICRO_RAD_OPTIONS
cd /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/OBJ
if ( ! ( -e Filepath ) ) then
cat
endif
gmake -j4 -f /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/Makefile
cat: Srcfiles: No such file or directory
/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/SCRIPT/mkSrcfiles > Srcfiles
/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/SCRIPT/mkDepends Filepath Srcfiles > Depends
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/CLUBB/model_flags.F90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/CLUBB/error_code.F90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/CLUBB/clubb_precision.F90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/SIMULATORS/MISR_simulator.f
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/CLUBB/parameter_indices.F90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/abcoefs.f90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/RAD_CAM/shr_kind_mod.f90;
/usr/local/mpi/MPICH-3.3.1-gfortran/bin/mpif90 -c   -g -fbounds-check -mieee-fp -finit-real=nan -finit-integer=-99999 -finit-logical=false -fall-intrinsics -fbacktrace -ffree-line-length-0 -fcheck=all -I/usr/local/mpi/MPICH-3.3.1-gfortran/include -I/usr/local/NETCDF-Fortran-4.4.5-gfortran/include -DCLUBB -DCLUBB_REAL_TYPE=8 -DNETCDF -DUWM_STATS -DUWM_MISC -DSILHS -DUWM_MICRO_CHANGES -DMICRO_RESTART  /home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/vars.F90;
/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/abcoefs.f90:6:4:

 use grid_config
    1
Fatal Error: Can't open module file ‘grid_config.mod’ for reading at (1): No such file or directory
compilation terminated.
gmake: *** [/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/Makefile:697: abcoefs.o] Error 1
gmake: *** Waiting for unfinished jobs....
/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/SRC/vars.F90:3:4:

 use grid_config
    1
Fatal Error: Can't open module file ‘grid_config.mod’ for reading at (1): No such file or directory
compilation terminated.
gmake: *** [/home/jenkins/workspace/sam_clubb_silhs_gfortran_build/Makefile:699: vars.o] Error 1
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Run SAM)
Stage "Run SAM" skipped due to earlier failure(s)
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Declarative: Post Actions)
[Pipeline] cleanWs
[WS-CLEANUP] Deleting project workspace...
[WS-CLEANUP] Deferred wipeout is used...
[WS-CLEANUP] done
[Pipeline] emailext
Sending email to: messnermet@uwm.edu
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // withEnv
[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
ERROR: script returned exit code 2
Finished: FAILURE