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Started by an SCM change Obtained jenkins_tests/e3sm_ne4_silhs_run_gfortran_test/Jenkinsfile from git https://github.com/larson-group/e3sm.git [Pipeline] Start of Pipeline [Pipeline] node Running on malan in /home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test [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/e3sm.git > git init /home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test # timeout=10 Fetching upstream changes from https://github.com/larson-group/e3sm.git > git --version # timeout=10 > git --version # 'git version 2.30.2' using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021 > git fetch --tags --force --progress -- https://github.com/larson-group/e3sm.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch Checking out Revision 3ec29b165cfad789324407d03730bb7a72d0a61a (refs/remotes/origin/clubb_silhs_devel) Commit message: "Autoupdated CLUBB_core Commit 3f865924bdcf798fa45acaa67b57c44f40c32d89 Author: Gunther Huebler Date: Wed Jul 31 17:30:51 2024 -0500 Moving pdf_params copying to copyin. This is the data structure that contains pointers, and these pointers will be different on the host and device, so it is bad in theory to copy the structure back to the CPU as it might overwrite cpu memory pointers with gpu memory pointers. In practice though I've seen no problems caused by this, I'm just making this commit preemptively, and it has already been tested with the ECT test." > git config remote.origin.url https://github.com/larson-group/e3sm.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/clubb_silhs_devel^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f 3ec29b165cfad789324407d03730bb7a72d0a61a # timeout=10 > git rev-list --no-walk 17fdf631073cfd9d0af7371a8bb7c0bcb064bb76 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Checkout Branch and Submodules) [Pipeline] sh + git submodule init Submodule 'cime' (https://github.com/ESMCI/cime.git) registered for path 'cime' Submodule 'cosp2' (git@github.com:CFMIP/COSPv2.0.git) registered for path 'components/eam/src/physics/cosp2/external' Submodule 'rrtmgp' (git@github.com:RobertPincus/rte-rrtmgp.git) registered for path 'components/eam/src/physics/rrtmgp/external' Submodule 'fates' (git@github.com:NGEET/fates.git) registered for path 'components/elm/src/external_models/fates' Submodule 'alm-mpp' (git@github.com:MPP-LSM/MPP.git) registered for path 'components/elm/src/external_models/mpp' Submodule 'sbetr' (git@github.com:BeTR-biogeochemistry-modeling/sbetr.git) registered for path 'components/elm/src/external_models/sbetr' Submodule 'components/mpas-source' (https://github.com/MPAS-Dev/MPAS-Model.git) registered for path 'components/mpas-source' Submodule 'externals/YAKL' (git@github.com:mrnorman/YAKL.git) registered for path 'externals/YAKL' Submodule 'externals/cub' (git@github.com:NVlabs/cub.git) registered for path 'externals/cub' Submodule 'externals/kokkos' (https://github.com/E3SM-Project/kokkos.git) registered for path 'externals/kokkos' Submodule 'externals/scorpio' (https://github.com/E3SM-Project/scorpio.git) registered for path 'externals/scorpio' Submodule 'externals/scorpio_classic' (https://github.com/E3SM-Project/scorpio.git) registered for path 'externals/scorpio_classic' + git submodule update Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/cime'... Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/cosp2/external'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:CFMIP/COSPv2.0.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/cosp2/external' failed Failed to clone 'components/eam/src/physics/cosp2/external'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/rrtmgp/external'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:RobertPincus/rte-rrtmgp.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/rrtmgp/external' failed Failed to clone 'components/eam/src/physics/rrtmgp/external'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/fates'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:NGEET/fates.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/fates' failed Failed to clone 'components/elm/src/external_models/fates'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/mpp'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:MPP-LSM/MPP.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/mpp' failed Failed to clone 'components/elm/src/external_models/mpp'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/sbetr'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:BeTR-biogeochemistry-modeling/sbetr.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/elm/src/external_models/sbetr' failed Failed to clone 'components/elm/src/external_models/sbetr'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/mpas-source'... Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/YAKL'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:mrnorman/YAKL.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/YAKL' failed Failed to clone 'externals/YAKL'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/cub'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:NVlabs/cub.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/cub' failed Failed to clone 'externals/cub'. Retry scheduled Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/kokkos'... Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/scorpio'... Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/externals/scorpio_classic'... Cloning into '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/cosp2/external'... Host key verification failed. fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. fatal: clone of 'git@github.com:CFMIP/COSPv2.0.git' into submodule path '/home/jenkins/workspace/e3sm_ne4_silhs_run_gfortran_test/components/eam/src/physics/cosp2/external' failed Failed to clone 'components/eam/src/physics/cosp2/external' a second time, aborting [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Remove Old Output) Stage "Remove Old Output" skipped due to earlier failure(s) [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Run) Stage "Run" skipped due to earlier failure(s) [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] script [Pipeline] { [Pipeline] sh + gzip -d '/home/jenkins/E3SM_simulations/nelson.mg2_def.ne4_ne4/build/e3sm.bldlog.*.gz' gzip: /home/jenkins/E3SM_simulations/nelson.mg2_def.ne4_ne4/build/e3sm.bldlog.*.gz: No such file or directory [Pipeline] echo E3SM build logs were not made. [Pipeline] sh + gzip -d '/home/jenkins/E3SM_simulations/nelson.mg2_def.ne4_ne4/run/atm.log.*.gz' gzip: /home/jenkins/E3SM_simulations/nelson.mg2_def.ne4_ne4/run/atm.log.*.gz: No such file or directory [Pipeline] echo Run logs were not all made. [Pipeline] cleanWs [WS-CLEANUP] Deleting project workspace... [WS-CLEANUP] Deferred wipeout is used... [WS-CLEANUP] done [Pipeline] } [Pipeline] // script [Pipeline] script [Pipeline] { [Pipeline] emailext Sending email to: messnermet@uwm.edu [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline ERROR: script returned exit code 1 Finished: FAILURE