Started by GitHub push by MathieuMorlighem Started by GitHub push by MathieuMorlighem Running as SYSTEM Building remotely on macOS-Silicon (mac) in workspace /Users/jenkins/workspace/macOS-Silicon-Python The recommended git tool is: NONE > git rev-parse --resolve-git-dir /Users/jenkins/workspace/macOS-Silicon-Python/.git # timeout=10 Fetching changes from the remote Git repository > git config remote.origin.url git@github.com:ISSMteam/ISSM.git # timeout=10 Fetching upstream changes from git@github.com:ISSMteam/ISSM.git > git --version # timeout=10 > git --version # 'git version 2.39.5 (Apple Git-154)' using GIT_SSH to set credentials GitHub Deploy Key - ISSMteam/ISSM - Jenkins Verifying host key using known hosts file > git fetch --tags --force --progress -- git@github.com:ISSMteam/ISSM.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/main^{commit} # timeout=10 Checking out Revision cb5429a9c9240b58811f8c1bdc98120b66802275 (refs/remotes/origin/main) > git config core.sparsecheckout # timeout=10 > git checkout -f cb5429a9c9240b58811f8c1bdc98120b66802275 # timeout=10 Commit message: "CHG: making sure scaling factor is >0 and not NaN" > git rev-list --no-walk 342ae88469b1a293f8d24aee3a009e23fd0de054 # timeout=10 [macOS-Silicon-Python] $ /bin/bash /var/folders/mx/mr9ch0gx2qq_tty2dtgrjcn40000gp/T/jenkins10790587262731544332.sh Cleaning up execution directory ====================================================== Determining installation type ====================================================== List of changed files --------------------- src/c/cores/controladm1qn3_core.cpp src/m/classes/independent.m src/m/classes/independent.py -- checking for changed externalpackages... no -- checking for reconfiguration... no -- checking for recompilation... yes ====================================================== Skipping autotools ====================================================== ====================================================== Skipping cmake ====================================================== ====================================================== Skipping petsc ====================================================== ====================================================== Skipping triangle ====================================================== ====================================================== Skipping m1qn3 ====================================================== ====================================================== Skipping semic ====================================================== ====================================================== Skipping shell2junit ====================================================== ====================================================== Compiling ISSM ====================================================== Making with 8 CPUs /Library/Developer/CommandLineTools/usr/bin/make all-recursive Making all in src Making all in c CXX cores/libISSMCore_la-controladm1qn3_core.lo CXXLD libISSMCore.la ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpicxx.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpi.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libpmpi.dylib, ignoring unexpected dylib file ld: warning: -undefined suppress is deprecated CXXLD libISSMModules.la ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpi.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpicxx.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libpmpi.dylib, ignoring unexpected dylib file ld: warning: -undefined suppress is deprecated CXXLD issm_slc.exe CXXLD issm.exe CXXLD kriging.exe ld: warning: -bind_at_load is deprecated on macOS ld: warning: -bind_at_load is deprecated on macOS ld: warning: -bind_at_load is deprecated on macOS Making all in m make[3]: Nothing to be done for `all'. Making all in wrappers Making all in python CXXLD libISSMPython.la ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpicxx.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libpmpi.dylib, ignoring unexpected dylib file ld: warning: /Users/jenkins/workspace/macOS-Silicon-Python/externalpackages/petsc/install/lib/libmpi.dylib, ignoring unexpected dylib file ld: warning: -undefined suppress is deprecated ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found CXXLD BamgMesher_python.la CXXLD BamgConvertMesh_python.la CXXLD ContourToNodes_python.la CXXLD BamgTriangulate_python.la CXXLD ContourToMesh_python.la CXXLD InterpFromGridToMesh_python.la CXXLD ElementConnectivity_python.la CXXLD ExpToLevelSet_python.la ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found CXXLD InterpFromMesh2d_python.la CXXLD InterpFromMeshToMesh2d_python.la CXXLD InterpFromMeshToGrid_python.la CXXLD InterpFromMeshToMesh3d_python.la CXXLD IssmConfig_python.la CXXLD MeshPartition_python.la CXXLD MeshProfileIntersection_python.la CXXLD NodeConnectivity_python.la ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found CXXLD Triangle_python.la CXXLD ProcessRifts_python.la ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found ld: warning: -dylib_file is deprecated. Use -F or -L to control where indirect dylibs are found make[4]: Nothing to be done for `all-am'. make[3]: Nothing to be done for `all-am'. make[2]: Nothing to be done for `all-am'. Making install in src Making install in c CXXLD issm.exe ld: warning: -bind_at_load is deprecated on macOS CXXLD issm_slc.exe ld: warning: -bind_at_load is deprecated on macOS CXXLD kriging.exe ld: warning: -bind_at_load is deprecated on macOS CXXLD issm.exe ld: warning: -bind_at_load is deprecated on macOS CXXLD issm_slc.exe ld: warning: -bind_at_load is deprecated on macOS CXXLD kriging.exe ld: warning: -bind_at_load is deprecated on macOS ../.././aux-config/install-sh -c -d '/Users/jenkins/workspace/macOS-Silicon-Python/lib' /bin/sh ../../libtool --mode=install /usr/bin/install -c libISSMCore.la libISSMOverload.la libISSMModules.la '/Users/jenkins/workspace/macOS-Silicon-Python/lib' libtool: install: /usr/bin/install -c .libs/libISSMCore.dylib /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMCore.dylib libtool: install: /usr/bin/install -c .libs/libISSMCore.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMCore.la libtool: install: /usr/bin/install -c .libs/libISSMOverload.dylib /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMOverload.dylib libtool: install: /usr/bin/install -c .libs/libISSMOverload.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMOverload.la libtool: install: /usr/bin/install -c .libs/libISSMModules.dylib /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMModules.dylib libtool: install: /usr/bin/install -c .libs/libISSMModules.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMModules.la ../.././aux-config/install-sh -c -d '/Users/jenkins/workspace/macOS-Silicon-Python/bin' /bin/sh ../../libtool --mode=install /usr/bin/install -c issm.exe issm_slc.exe kriging.exe '/Users/jenkins/workspace/macOS-Silicon-Python/bin' libtool: install: /usr/bin/install -c .libs/issm.exe /Users/jenkins/workspace/macOS-Silicon-Python/bin/issm.exe libtool: install: /usr/bin/install -c .libs/issm_slc.exe /Users/jenkins/workspace/macOS-Silicon-Python/bin/issm_slc.exe libtool: install: /usr/bin/install -c .libs/kriging.exe /Users/jenkins/workspace/macOS-Silicon-Python/bin/kriging.exe make[3]: Nothing to be done for `install-data-am'. Making install in m ../.././aux-config/install-sh -c -d '/Users/jenkins/workspace/macOS-Silicon-Python/bin' make[3]: Nothing to be done for `install-data-am'. Making install in wrappers Making install in python ../../.././aux-config/install-sh -c -d '/Users/jenkins/workspace/macOS-Silicon-Python/lib' /bin/sh ../../../libtool --mode=install /usr/bin/install -c libISSMPython.la libISSMApi_python.la BamgConvertMesh_python.la BamgMesher_python.la BamgTriangulate_python.la ContourToMesh_python.la ContourToNodes_python.la ElementConnectivity_python.la ExpToLevelSet_python.la InterpFromGridToMesh_python.la InterpFromMesh2d_python.la InterpFromMeshToGrid_python.la InterpFromMeshToMesh2d_python.la InterpFromMeshToMesh3d_python.la IssmConfig_python.la MeshPartition_python.la MeshProfileIntersection_python.la NodeConnectivity_python.la Triangle_python.la ProcessRifts_python.la '/Users/jenkins/workspace/macOS-Silicon-Python/lib' libtool: install: /usr/bin/install -c .libs/libISSMPython.0.dylib /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMPython.0.dylib libtool: install: (cd /Users/jenkins/workspace/macOS-Silicon-Python/lib && { ln -s -f libISSMPython.0.dylib libISSMPython.dylib || { rm -f libISSMPython.dylib && ln -s libISSMPython.0.dylib libISSMPython.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libISSMPython.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMPython.la libtool: install: /usr/bin/install -c .libs/libISSMApi_python.0.dylib /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMApi_python.0.dylib libtool: install: (cd /Users/jenkins/workspace/macOS-Silicon-Python/lib && { ln -s -f libISSMApi_python.0.dylib libISSMApi_python.dylib || { rm -f libISSMApi_python.dylib && ln -s libISSMApi_python.0.dylib libISSMApi_python.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libISSMApi_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/libISSMApi_python.la libtool: install: /usr/bin/install -c .libs/BamgConvertMesh_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgConvertMesh_python.so libtool: install: /usr/bin/install -c .libs/BamgConvertMesh_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgConvertMesh_python.la libtool: install: /usr/bin/install -c .libs/BamgMesher_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgMesher_python.so libtool: install: /usr/bin/install -c .libs/BamgMesher_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgMesher_python.la libtool: install: /usr/bin/install -c .libs/BamgTriangulate_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgTriangulate_python.so libtool: install: /usr/bin/install -c .libs/BamgTriangulate_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/BamgTriangulate_python.la libtool: install: /usr/bin/install -c .libs/ContourToMesh_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/ContourToMesh_python.so libtool: install: /usr/bin/install -c .libs/ContourToMesh_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/ContourToMesh_python.la libtool: install: /usr/bin/install -c .libs/ContourToNodes_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/ContourToNodes_python.so libtool: install: /usr/bin/install -c .libs/ContourToNodes_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/ContourToNodes_python.la libtool: install: /usr/bin/install -c .libs/ElementConnectivity_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/ElementConnectivity_python.so libtool: install: /usr/bin/install -c .libs/ElementConnectivity_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/ElementConnectivity_python.la libtool: install: /usr/bin/install -c .libs/ExpToLevelSet_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/ExpToLevelSet_python.so libtool: install: /usr/bin/install -c .libs/ExpToLevelSet_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/ExpToLevelSet_python.la libtool: install: /usr/bin/install -c .libs/InterpFromGridToMesh_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromGridToMesh_python.so libtool: install: /usr/bin/install -c .libs/InterpFromGridToMesh_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromGridToMesh_python.la libtool: install: /usr/bin/install -c .libs/InterpFromMesh2d_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMesh2d_python.so libtool: install: /usr/bin/install -c .libs/InterpFromMesh2d_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMesh2d_python.la libtool: install: /usr/bin/install -c .libs/InterpFromMeshToGrid_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToGrid_python.so libtool: install: /usr/bin/install -c .libs/InterpFromMeshToGrid_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToGrid_python.la libtool: install: /usr/bin/install -c .libs/InterpFromMeshToMesh2d_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToMesh2d_python.so libtool: install: /usr/bin/install -c .libs/InterpFromMeshToMesh2d_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToMesh2d_python.la libtool: install: /usr/bin/install -c .libs/InterpFromMeshToMesh3d_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToMesh3d_python.so libtool: install: /usr/bin/install -c .libs/InterpFromMeshToMesh3d_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/InterpFromMeshToMesh3d_python.la libtool: install: /usr/bin/install -c .libs/IssmConfig_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/IssmConfig_python.so libtool: install: /usr/bin/install -c .libs/IssmConfig_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/IssmConfig_python.la libtool: install: /usr/bin/install -c .libs/MeshPartition_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/MeshPartition_python.so libtool: install: /usr/bin/install -c .libs/MeshPartition_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/MeshPartition_python.la libtool: install: /usr/bin/install -c .libs/MeshProfileIntersection_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/MeshProfileIntersection_python.so libtool: install: /usr/bin/install -c .libs/MeshProfileIntersection_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/MeshProfileIntersection_python.la libtool: install: /usr/bin/install -c .libs/NodeConnectivity_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/NodeConnectivity_python.so libtool: install: /usr/bin/install -c .libs/NodeConnectivity_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/NodeConnectivity_python.la libtool: install: /usr/bin/install -c .libs/Triangle_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/Triangle_python.so libtool: install: /usr/bin/install -c .libs/Triangle_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/Triangle_python.la libtool: install: /usr/bin/install -c .libs/ProcessRifts_python.so /Users/jenkins/workspace/macOS-Silicon-Python/lib/ProcessRifts_python.so libtool: install: /usr/bin/install -c .libs/ProcessRifts_python.lai /Users/jenkins/workspace/macOS-Silicon-Python/lib/ProcessRifts_python.la make[4]: Nothing to be done for `install-data-am'. make[4]: Nothing to be done for `install-exec-am'. make[4]: Nothing to be done for `install-data-am'. make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. --------------Running Python test for Rank 1--------------------- --------------Running Python test for Rank 1--------------------- --------------Running Python test for Rank 2--------------------- --------------Running Python test for Rank 2--------------------- Waiting on: 33421 Waiting on: 33422 This is the concatenation phase for rank: python_log1.log This is the concatenation phase for rank: python_log2.log +++ Removing old junit reports from: /Users/jenkins/workspace/macOS-Silicon-Python/nightlylog/results ----------Python exited in error!---------- OSGeo/GDAL for Python not installed, overlay plots are not enabled Traceback (most recent call last): File "/Users/jenkins/workspace/macOS-Silicon-Python/test/NightlyRun/./runme.py", line 31, in <module> from loadmodel import loadmodel File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/io/loadmodel.py", line 1, in <module> from loadvars import loadvars File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/io/loadvars.py", line 13, in <module> from model import * File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/model.py", line 54, in <module> from autodiff import autodiff File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/autodiff.py", line 3, in <module> from independent import independent File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/independent.py", line 76 md = checkfield(md, 'fieldname', 'autodiff.independents[%d].control_scaling_factor' % i, 'size',[1 1], '>', 0, 'NaN', 1, 'Inf', 1) ^ SyntaxError: invalid syntax OSGeo/GDAL for Python not installed, overlay plots are not enabled Traceback (most recent call last): File "/Users/jenkins/workspace/macOS-Silicon-Python/test/NightlyRun/./runme.py", line 31, in <module> from loadmodel import loadmodel File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/io/loadmodel.py", line 1, in <module> from loadvars import loadvars File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/io/loadvars.py", line 13, in <module> from model import * File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/model.py", line 54, in <module> from autodiff import autodiff File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/autodiff.py", line 3, in <module> from independent import independent File "/Users/jenkins/workspace/macOS-Silicon-Python/src/m/classes/independent.py", line 76 md = checkfield(md, 'fieldname', 'autodiff.independents[%d].control_scaling_factor' % i, 'size',[1 1], '>', 0, 'NaN', 1, 'Inf', 1) ^ SyntaxError: invalid syntax -----------End of python_log.log----------- Build step 'Execute shell' marked build as failure Recording test results Finished: FAILURE