Started by timer
Obtained pipeline-gnulinux-intel.txt from git https://github.com/OpenCMISS/jenkins.git
Running in Durability level: MAX_SURVIVABILITY
Loading library opencmiss-library@master
Jenkins-Imposed API Limiter: Current quota for Github API usage has 59 remaining (6 under budget). Next quota of 60 in 59 min
Examining opencmiss/jenkins-pipeline-library
Attempting to resolve master as a branch
Resolved master as branch master at revision 901cec77bae1509745ad4040093c0da6acfae806
Selected Git installation does not exist. Using Default
The recommended git tool is: NONE
No credentials specified
 > git rev-parse --is-inside-work-tree # timeout=10
Fetching changes from the remote Git repository
 > git config remote.origin.url https://github.com/opencmiss/jenkins-pipeline-library.git # timeout=10
Fetching without tags
Fetching upstream changes from https://github.com/opencmiss/jenkins-pipeline-library.git
 > git --version # timeout=10
 > git --version # 'git version 2.7.4'
 > git fetch --no-tags --progress https://github.com/opencmiss/jenkins-pipeline-library.git +refs/heads/master:refs/remotes/origin/master # timeout=10
Checking out Revision 901cec77bae1509745ad4040093c0da6acfae806 (master)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 901cec77bae1509745ad4040093c0da6acfae806 # timeout=10
Commit message: "Update cleanSetup.groovy"
[Pipeline] Start of Pipeline
[Pipeline] parallel
[Pipeline] { (Branch: Linux Intel)
[Pipeline] node
Running on Ubuntu_16.04_bioeng49 in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Linux Intel Clean)
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Update)
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/null/build/manage/release
[Pipeline] {
[Pipeline] sh
+ make update_all
make: *** No rule to make target 'update_all'.  Stop.
[Pipeline] echo
Error trying to update_all.
[Pipeline] }
[Pipeline] // dir
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/null/src/cmake_modules
[Pipeline] {
[Pipeline] sh
+ git pull
fatal: not a git repository (or any of the parent directories): .git
[Pipeline] echo
Error trying to update CMake modules.
[Pipeline] }
[Pipeline] // dir
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/null/src/manage
[Pipeline] {
[Pipeline] sh
+ git pull
fatal: not a git repository (or any of the parent directories): .git
[Pipeline] echo
Error trying to update manage.
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Configure)
[Pipeline] sh
+ mkdir -p opencmiss
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/setup
[Pipeline] {
[Pipeline] git
The recommended git tool is: NONE
No credentials specified
Fetching changes from the remote Git repository
Checking out Revision 2a7167dcb2eb047466795b9a701eb745946a85cb (refs/remotes/origin/develop)
Commit message: "Allow for only building Zinc or Iron dependencies."
 > git rev-parse --is-inside-work-tree # timeout=10
 > git config remote.origin.url https://github.com/OpenCMISS/setup.git # timeout=10
Fetching upstream changes from https://github.com/OpenCMISS/setup.git
 > git --version # timeout=10
 > git --version # 'git version 2.17.1'
 > git fetch --tags --progress -- https://github.com/OpenCMISS/setup.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git rev-parse refs/remotes/origin/develop^{commit} # timeout=10
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 2a7167dcb2eb047466795b9a701eb745946a85cb # timeout=10
 > git branch -a -v --no-abbrev # timeout=10
 > git branch -D develop # timeout=10
 > git checkout -b develop 2a7167dcb2eb047466795b9a701eb745946a85cb # timeout=10
 > git rev-list --no-walk 2a7167dcb2eb047466795b9a701eb745946a85cb # timeout=10
[Pipeline] }
[Pipeline] // dir
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/setup-build
[Pipeline] {
[Pipeline] sh
-- Checking CMake version..
-- Checking https CMAKE_3_14_4_HAS_HTTPS: YES
-- Using GitHub protocol: https://github.com/
-- Disabling download of cmake modules.
-- Disabling download of manage.
-- @
-- @@@@@@@@@@@@@@@@@@@@@@@@ SUMMARY @@@@@@@@@@@@@@@@@@@@@@@@
-- @
-- @ OPENCMISS_SETUP_TYPE: standard
-- @ OPENCMISS_INDEPENDENT: FALSE
-- @ OPENCMISS_PERFORM_INITIAL_BUILD: TRUE
-- @ OPENCMISS_VERSION: develop
-- @ OPENCMISS_MULTI_ARCHITECTURE: FALSE
-- @ OPENCMISS_CONFIG_BUILD_TYPE: Release
-- @
-- @ OPENCMISS_ROOT: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss
-- @ OPENCMISS_LIBRARIES: iron
-- @ OPENCMISS_PYTHON_EXECUTABLE: 
-- @
-- @ OPENCMISS_CMAKE_MODULES_SOURCE_DIR: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/src/cmake_modules
-- @ OPENCMISS_CMAKE_MODULES_BINARY_DIR: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/cmake_modules/release
-- @ OPENCMISS_CMAKE_MODULE_PATH: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules
-- @
-- @ MANAGE_CONFIGURE_ARGS: -DOPENCMISS_USE_ARCHITECTURE_PATH=FALSE;-DOPENCMISS_DEVELOP_ALL=YES;-DOPENCMISS_BUILD_TYPE=Release;-DOPENCMISS_IRON_ONLY=TRUE;-DOPENCMISS_PYTHON_EXECUTABLE=
-- @
-- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
-- @
-- Configuring done
-- Generating done
-- Build files have been written to: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/setup-build
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Make)
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/setup-build
[Pipeline] {
[Pipeline] sh
[ 50%] Built target setup_cmake_modules
[ 56%] Performing build step for 'setup_manage'
[  3%] Checking PLAPACK sources are present
[  3%] Built target SM_plapack_sources
[  3%] Checking SUPERLU_DIST sources are present
[  3%] Built target SM_superlu_dist_sources
[  7%] Checking SUPERLU sources are present
[  7%] Built target SM_superlu_sources
[ 11%] Checking SUNDIALS sources are present
[ 11%] Built target SM_sundials_sources
[ 14%] Checking CLANG sources are present
[ 14%] Built target SM_clang_sources
[ 14%] Checking SOWING sources are present
[ 14%] Built target SM_sowing_sources
[ 18%] Checking SZIP sources are present
[ 18%] Built target SM_szip_sources
[ 22%] Checking CELLML sources are present
[ 22%] Built target SM_cellml_sources
[ 22%] Checking HDF5 sources are present
[ 22%] Built target SM_hdf5_sources
[ 25%] Checking LIBXML2 sources are present
[ 25%] Built target SM_libxml2_sources
[ 29%] Checking HYPRE sources are present
[ 29%] Built target SM_hypre_sources
[ 33%] Checking IRON sources are present
[ 33%] Built target SM_iron_sources
[ 37%] Checking ZLIB sources are present
[ 37%] Built target SM_zlib_sources
[ 40%] Checking SLEPC sources are present
[ 40%] Built target SM_slepc_sources
[ 44%] Checking SUITESPARSE sources are present
[ 44%] Built target SM_suitesparse_sources
[ 48%] Checking SCOTCH sources are present
[ 48%] Built target SM_scotch_sources
[ 51%] Checking PETSC sources are present
[ 51%] Built target SM_petsc_sources
[ 55%] Checking BZIP2 sources are present
[ 55%] Built target SM_bzip2_sources
[ 59%] Checking CSIM sources are present
[ 59%] Built target SM_csim_sources
[ 62%] Checking GTEST sources are present
[ 62%] Built target SM_gtest_sources
[ 66%] Checking SCALAPACK sources are present
[ 66%] Built target SM_scalapack_sources
[ 70%] Checking LLVM sources are present
[ 70%] Built target SM_llvm_sources
[ 70%] Checking LIBCELLML sources are present
[ 70%] Built target SM_libcellml_sources
[ 74%] Checking MUMPS sources are present
[ 74%] Built target SM_mumps_sources
[ 77%] Checking PARMETIS sources are present
[ 77%] Built target SM_parmetis_sources
[ 81%] Checking PASTIX sources are present
[ 81%] Built target SM_pastix_sources
[ 85%] Checking FIELDML-API sources are present
[ 85%] Built target SM_fieldml-api_sources
[ 85%] Built target get_sources
[ 88%] Creating config.
-- Attempting to use intel compilers.
CMake Error at /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules/FindPython/Support.cmake:1112 (cmake_policy):
  cmake_policy GET given policy "CMP0094" which is not known to this version
  of CMake.
Call Stack (most recent call first):
  /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules/FindPython.cmake:415 (include)
  CMakeLists.txt:140 (find_package)


CMake Error at /usr/local/share/cmake-3.14/Modules/FindPackageHandleStandardArgs.cmake:195 (message):
  Unknown keywords given to FIND_PACKAGE_HANDLE_STANDARD_ARGS():
  "REASON_FAILURE_MESSAGE"
Call Stack (most recent call first):
  /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules/FindPython/Support.cmake:2984 (find_package_handle_standard_args)
  /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules/FindPython.cmake:415 (include)
  CMakeLists.txt:140 (find_package)


-- Configuring incomplete, errors occurred!
See also "/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/config/Release/CMakeFiles/CMakeOutput.log".
CMakeFiles/manage_config.dir/build.make:78: recipe for target 'config/Release/stamp/manage_config-create' failed
make[5]: *** [config/Release/stamp/manage_config-create] Error 1
CMakeFiles/Makefile2:168: recipe for target 'CMakeFiles/manage_config.dir/all' failed
make[4]: *** [CMakeFiles/manage_config.dir/all] Error 2
Makefile:94: recipe for target 'all' failed
make[3]: *** [all] Error 2
CMakeFiles/setup_manage.dir/build.make:112: recipe for target 'setup_manage-prefix/src/setup_manage-stamp/setup_manage-build' failed
make[2]: *** [setup_manage-prefix/src/setup_manage-stamp/setup_manage-build] Error 2
CMakeFiles/Makefile2:141: recipe for target 'CMakeFiles/setup_manage.dir/all' failed
make[1]: *** [CMakeFiles/setup_manage.dir/all] Error 2
Makefile:83: recipe for target 'all' failed
make: *** [all] Error 2
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Test)
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/config/Release
[Pipeline] {
[Pipeline] sh
make: *** No rule to make target 'keytests'.  Stop.
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Package)
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release
[Pipeline] {
[Pipeline] sh
+ cmake -DOPENCMISS_RELEASE=OFF .
-- Read options from: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/InstallationOptions.cmake
-- Applying component Git settings at: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/Settings/OCComponentGitValues.cmake
-- Applying component configuration at: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/SharedSettings/OCComponentConfig.cmake
-- Applying component version settings from: OCComponentVersions
-- Applying component branch settings from: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/Settings/OCComponentBranches.cmake
-- Toolchain: Instrumentation: 
-- Looking for an MPI ...
-- Checking method: F77_HEADER
-- Checking method: F08_MODULE
-- Checking method: F90_MODULE
-- Checking method: F77_HEADER
-- Checking method: F08_MODULE
-- Checking method: F90_MODULE
-- Looking for an MPI ... found mpich
-- FindLAPACK wrapper: System search enabled
-- FindLAPACK wrapper: Trying to find version 3.5.0 on system in MODULE mode
-- A library with BLAS API found.
-- FindLAPACK wrapper: Found: /home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_intel_lp64.so;/home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_intel_thread.so;/home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_core.so;/usr/lib/libiomp5.so;-lpthread;-lm
-- FindBLAS wrapper: System search enabled
-- FindBLAS wrapper: Trying to find version  on system in MODULE mode
-- FindBLAS wrapper: Found: /home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_intel_lp64.so;/home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_intel_thread.so;/home/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin/libmkl_core.so;/usr/lib/libiomp5.so
-- Things have gone pear shaped.
-- Unknown instrumentation option. Ignoring.
-- Manage::Instrumentation: 
-- @
-- @@@@@@@@@@@@@@@@@@@@@ SUMMARY @@@@@@@@@@@@@@@@@@@@@@@
-- @
-- @ OPENCMISS_TOOLCHAIN: intel
-- @ OPENCMISS_MPI_IMPLEMENTATION: mpich
-- @ ACTIVE_ARCHITECTURE_MPI_PATH: 
-- @
-- @ CONFIG PATH: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/config/Release
-- @ CONFIGURATION SETTINGS: -DOC_USE_IRON=ON -DOC_USE_ZINC=OFF -DOPENCMISS_BUILD_TYPE=Release -DOPENCMISS_MPI_IMPLEMENTATION=mpich -DMPIEXEC_EXECUTABLE=/usr/bin/mpiexec -DMPI_C_COMPILER=/usr/bin/mpicc -DMPI_CXX_COMPILER=/usr/bin/mpicxx -DMPI_Fortran_COMPILER=/usr/bin/mpif90 -DOPENCMISS_LIBRARIES_ONLY=NO -DOPENCMISS_DEPENDENCIES_ONLY=FALSE -DOPENCMISS_ZINC_DEPENDENCIES_ONLY=NO -DOPENCMISS_IRON_DEPENDENCIES_ONLY=NO -DOPENCMISS_TOOLCHAIN=intel -DOPENCMISS_BUILD_OWN_MPI=NO -DOPENCMISS_INSTRUMENTATION= -DOPENCMISS_OWN_MPI_INSTALL_BASE=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install -DOPENCMISS_ROOTS_FILE=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/ConfiguredFiles/OpenCMISSRoots.cmake -DOPENCMISS_CMAKE_MODULE_PATH=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/install/share/cmake/Modules -DOPENCMISS_SUPPORT_DIR=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/support -DOPENCMISS_USE_ARCHITECTURE_PATH=FALSE -DARCH_MPI_PATH= -DARCH_NO_MPI_PATH= -DCONFIG_PACKAGE_ARCHITECTURE_MPI_PATH=. -DCONFIG_PACKAGE_ARCHITECTURE_NO_MPI_PATH=. -DSHARED_MODULES_PATH=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/src/manage/SharedModules -DSHARED_SETTINGS_PATH=/home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/SharedSettings
-- @
-- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
-- @
-- @
-- @@@@@@@@@@@@@@@@@@@ NEXT STEPS @@@@@@@@@@@@@@@@@@@@@@
-- @
-- @ - Change /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/OpenCMISSInstallationConfig.cmake according to your needs
-- @
-- @ Having trouble? Follow the galaxy hitchhiker's advice:
-- @ DONT PANIC ... and:
-- @ - Refer to http://staging.opencmiss.org/documentation/cmake/docs/config/index.html for customization instructions
-- @
-- @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
-- @
-- Configuring done
-- Generating done
-- Build files have been written to: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release
[Pipeline] sh
+ make package_sdk
-- Configuring done
-- Generating done
-- Build files have been written to: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/packaging/sdk/build
Run CPack packaging tool...
CPack: Create package using TGZ
CPack: Install projects
CPack: - Run preinstall target for: OpenCMISS Libraries SDK
CPack: - Install project: OpenCMISS Libraries SDK
CPack: Create package
CPack: - package: /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/packaging/sdk/source/../package/OpenCMISS-Libraries_1.3.0.20210702173623_SDK_Ubuntu-18.04.tar.gz generated.
Built target package_sdk
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Archive)
[Pipeline] dir
Running in /home/cmiss/Jenkins/workspace/OpenCMISS_GnuLinux_Intel/opencmiss/build/manage/release/packaging/sdk/package
[Pipeline] {
[Pipeline] archiveArtifacts
Archiving artifacts
[Pipeline] }
[Pipeline] // dir
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Linux Intel Finish)
[Pipeline] echo
Finish
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // node
[Pipeline] }
[Pipeline] // parallel
[Pipeline] End of Pipeline
Finished: SUCCESS