Branch indexing > git rev-parse --is-inside-work-tree # timeout=10 Setting origin to https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git > git config remote.origin.url https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git # timeout=10 Fetching origin... Fetching upstream changes from origin > git --version # timeout=10 > git config --get remote.origin.url # timeout=10 > git fetch --tags --progress -- origin +refs/heads/*:refs/remotes/origin/* # timeout=10 Seen branch in repository origin/cowbird-jupyter-e2e-test Seen branch in repository origin/current-production-version Seen branch in repository origin/devel-new-extensions Seen branch in repository origin/extended_tests Seen branch in repository origin/incremental-build-for-pascal-atelier Seen branch in repository origin/master Seen branch in repository origin/new-docker-build Seen branch in repository origin/test-dockerhub-build Seen branch in repository origin/twitcher_perf_test_notebook Seen 9 remote branches Obtained Jenkinsfile from 62a2065e68df1d48d3e84b9602073fe162704006 Running in Durability level: MAX_SURVIVABILITY [Pipeline] Start of Pipeline [Pipeline] node Running on linux1 in /home/jenkins/agent/workspace/emental-build-for-pascal-atelier [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout No credentials specified Cloning the remote Git repository Cloning with configured refspecs honoured and without tags Cloning repository https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git > git init /home/jenkins/agent/workspace/emental-build-for-pascal-atelier # timeout=10 Fetching upstream changes from https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git > git --version # timeout=10 > git fetch --no-tags --progress -- https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Fetching without tags Checking out Revision 62a2065e68df1d48d3e84b9602073fe162704006 (incremental-build-for-pascal-atelier) Commit message: "release: update to use image pavics/workflow-tests:py39-230601-1-update231122" First time build. Skipping changelog. > git config remote.origin.url https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git # timeout=10 Fetching upstream changes from https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git > git fetch --no-tags --progress -- https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f 62a2065e68df1d48d3e84b9602073fe162704006 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] isUnix [Pipeline] sh + docker inspect -f . pavics/workflow-tests:py39-230601-1-update231122 . [Pipeline] withDockerContainer linux1 seems to be running inside container c7b47b12d037a55684325ed6aba8c5cdbf14095a9ef2302738499cdd57ccd08b $ docker run -t -d -u 1000:1000 -w /home/jenkins/agent/workspace/emental-build-for-pascal-atelier --volumes-from c7b47b12d037a55684325ed6aba8c5cdbf14095a9ef2302738499cdd57ccd08b -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** -e ******** pavics/workflow-tests:py39-230601-1-update231122 cat $ docker top 212bd5c339aae52366f6cbb404880abf43aa0f399472ae4f889e9ee0db490eaf -eo pid,comm [Pipeline] { [Pipeline] ansiColor [Pipeline] { [Pipeline] timestamps [Pipeline] { [Pipeline] timeout [2023-11-23T20:50:13.480Z] Timeout set to expire in 2 hr 0 min [Pipeline] { [Pipeline] stage [Pipeline] { (Run tests) [Pipeline] script [Pipeline] { [Pipeline] withCredentials [2023-11-23T20:50:14.224Z] Masking supported pattern matches of $ESGF_AUTH_USERNAME or $ESGF_AUTH_PASSWORD or $ESGF_AUTH_TOKEN or $COMPUTE_TOKEN [Pipeline] { [Pipeline] sh [2023-11-23T20:50:14.617Z] + VERIFY_SSL=true SAVE_RESULTING_NOTEBOOK=true ./testall [2023-11-23T20:50:14.617Z] TEST_PAVICS_SDI_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] PAVICS_SDI_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] PAVICS_SDI_REPO not set, default to 'Ouranosinc/pavics-sdi' [2023-11-23T20:50:14.617Z] TEST_FINCH_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] FINCH_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] FINCH_REPO not set, default to 'bird-house/finch' [2023-11-23T20:50:14.617Z] TEST_PAVICS_LANDING_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] PAVICS_LANDING_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] PAVICS_LANDING_REPO not set, default to 'Ouranosinc/PAVICS-landing' [2023-11-23T20:50:14.617Z] TEST_RAVEN_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] RAVEN_BRANCH not set, default to 'main' [2023-11-23T20:50:14.617Z] RAVEN_REPO not set, default to 'Ouranosinc/raven' [2023-11-23T20:50:14.617Z] TEST_RAVENPY_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] RAVENPY_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] RAVENPY_REPO not set, default to 'CSHS-CWRA/RavenPy' [2023-11-23T20:50:14.617Z] TEST_ESGF_COMPUTE_API_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] ESGF_COMPUTE_API_BRANCH not set, default to 'devel' [2023-11-23T20:50:14.617Z] ESGF_COMPUTE_API_REPO not set, default to 'ESGF/esgf-compute-api' [2023-11-23T20:50:14.617Z] TEST_LOCAL_NOTEBOOKS not set, default to 'true' [2023-11-23T20:50:14.617Z] + git clean -fdx [2023-11-23T20:50:14.617Z] + ./downloadrepos [2023-11-23T20:50:14.617Z] TEST_PAVICS_SDI_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] PAVICS_SDI_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] PAVICS_SDI_REPO not set, default to 'Ouranosinc/pavics-sdi' [2023-11-23T20:50:14.617Z] TEST_FINCH_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] FINCH_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] FINCH_REPO not set, default to 'bird-house/finch' [2023-11-23T20:50:14.617Z] TEST_PAVICS_LANDING_REPO not set, default to 'true' [2023-11-23T20:50:14.617Z] PAVICS_LANDING_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] PAVICS_LANDING_REPO not set, default to 'Ouranosinc/PAVICS-landing' [2023-11-23T20:50:14.617Z] TEST_RAVEN_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] RAVEN_BRANCH not set, default to 'main' [2023-11-23T20:50:14.617Z] RAVEN_REPO not set, default to 'Ouranosinc/raven' [2023-11-23T20:50:14.617Z] TEST_RAVENPY_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] RAVENPY_BRANCH not set, default to 'master' [2023-11-23T20:50:14.617Z] RAVENPY_REPO not set, default to 'CSHS-CWRA/RavenPy' [2023-11-23T20:50:14.617Z] TEST_ESGF_COMPUTE_API_REPO not set, default to 'false' [2023-11-23T20:50:14.617Z] ESGF_COMPUTE_API_BRANCH not set, default to 'devel' [2023-11-23T20:50:14.617Z] ESGF_COMPUTE_API_REPO not set, default to 'ESGF/esgf-compute-api' [2023-11-23T20:50:14.617Z] TEST_LOCAL_NOTEBOOKS not set, default to 'true' [2023-11-23T20:50:14.617Z] + rm -rf pavics-sdi-* [2023-11-23T20:50:14.617Z] + ls [2023-11-23T20:50:14.617Z] + grep pavics-sdi [2023-11-23T20:50:14.617Z] + downloadrepos https://github.com/Ouranosinc/pavics-sdi master [2023-11-23T20:50:14.617Z] + github_repo=https://github.com/Ouranosinc/pavics-sdi [2023-11-23T20:50:14.617Z] + shift [2023-11-23T20:50:14.617Z] + branch=master [2023-11-23T20:50:14.617Z] + shift [2023-11-23T20:50:14.617Z] + wget --quiet --output-document - https://github.com/Ouranosinc/pavics-sdi/archive/master.tar.gz [2023-11-23T20:50:14.617Z] + tar xz [2023-11-23T20:50:17.892Z] + grep pavics-sdi [2023-11-23T20:50:17.892Z] + ls [2023-11-23T20:50:17.892Z] pavics-sdi-master [2023-11-23T20:50:17.892Z] + set +x [2023-11-23T20:50:17.892Z] + rm -rf finch-* [2023-11-23T20:50:17.892Z] + grep finch [2023-11-23T20:50:17.892Z] + ls [2023-11-23T20:50:17.892Z] + downloadrepos https://github.com/bird-house/finch master [2023-11-23T20:50:17.892Z] + github_repo=https://github.com/bird-house/finch [2023-11-23T20:50:17.892Z] + shift [2023-11-23T20:50:17.892Z] + branch=master [2023-11-23T20:50:17.892Z] + shift [2023-11-23T20:50:17.892Z] + tar xz [2023-11-23T20:50:17.892Z] + wget --quiet --output-document - https://github.com/bird-house/finch/archive/master.tar.gz [2023-11-23T20:50:19.268Z] + + ls [2023-11-23T20:50:19.268Z] grep finch [2023-11-23T20:50:19.268Z] finch-master [2023-11-23T20:50:19.268Z] + set +x [2023-11-23T20:50:19.268Z] + rm -rf PAVICS-landing-* [2023-11-23T20:50:19.268Z] + grep PAVICS-landing [2023-11-23T20:50:19.268Z] + ls [2023-11-23T20:50:19.268Z] + downloadrepos https://github.com/Ouranosinc/PAVICS-landing master [2023-11-23T20:50:19.268Z] + github_repo=https://github.com/Ouranosinc/PAVICS-landing [2023-11-23T20:50:19.268Z] + shift [2023-11-23T20:50:19.268Z] + branch=master [2023-11-23T20:50:19.268Z] + shift [2023-11-23T20:50:19.268Z] + tar xz [2023-11-23T20:50:19.268Z] + wget --quiet --output-document - https://github.com/Ouranosinc/PAVICS-landing/archive/master.tar.gz [2023-11-23T20:50:29.228Z] + ls [2023-11-23T20:50:29.228Z] + grep PAVICS-landing [2023-11-23T20:50:29.228Z] PAVICS-landing-master [2023-11-23T20:50:29.228Z] + set +x [2023-11-23T20:50:29.228Z] + rm -rf raven-* [2023-11-23T20:50:29.228Z] + ls [2023-11-23T20:50:29.228Z] + grep raven [2023-11-23T20:50:29.228Z] + downloadrepos https://github.com/Ouranosinc/raven main [2023-11-23T20:50:29.228Z] + github_repo=https://github.com/Ouranosinc/raven [2023-11-23T20:50:29.228Z] + shift [2023-11-23T20:50:29.228Z] + branch=main [2023-11-23T20:50:29.228Z] + shift [2023-11-23T20:50:29.228Z] + wget --quiet --output-document - https://github.com/Ouranosinc/raven/archive/main.tar.gz [2023-11-23T20:50:29.228Z] + tar xz [2023-11-23T20:50:29.228Z] + ls [2023-11-23T20:50:29.228Z] + grep raven [2023-11-23T20:50:29.228Z] raven-main [2023-11-23T20:50:29.228Z] + set +x [2023-11-23T20:50:29.228Z] + rm -rf RavenPy-* [2023-11-23T20:50:29.228Z] + ls [2023-11-23T20:50:29.228Z] + grep RavenPy [2023-11-23T20:50:29.228Z] + downloadrepos https://github.com/CSHS-CWRA/RavenPy master [2023-11-23T20:50:29.228Z] + github_repo=https://github.com/CSHS-CWRA/RavenPy [2023-11-23T20:50:29.228Z] + shift [2023-11-23T20:50:29.228Z] + branch=master [2023-11-23T20:50:29.228Z] + shift [2023-11-23T20:50:29.228Z] + wget --quiet --output-document - https://github.com/CSHS-CWRA/RavenPy/archive/master.tar.gz [2023-11-23T20:50:29.228Z] + tar xz [2023-11-23T20:50:31.118Z] + ls [2023-11-23T20:50:31.118Z] + grep RavenPy [2023-11-23T20:50:31.118Z] RavenPy-master [2023-11-23T20:50:31.118Z] + set +x [2023-11-23T20:50:31.118Z] + rm -rf esgf-compute-api-* [2023-11-23T20:50:31.118Z] + ls [2023-11-23T20:50:31.118Z] + grep esgf-compute-api [2023-11-23T20:50:31.118Z] + downloadrepos https://github.com/ESGF/esgf-compute-api devel [2023-11-23T20:50:31.118Z] + github_repo=https://github.com/ESGF/esgf-compute-api [2023-11-23T20:50:31.118Z] + shift [2023-11-23T20:50:31.118Z] + branch=devel [2023-11-23T20:50:31.118Z] + shift [2023-11-23T20:50:31.118Z] + wget --quiet --output-document - https://github.com/ESGF/esgf-compute-api/archive/devel.tar.gz [2023-11-23T20:50:31.118Z] + tar xz [2023-11-23T20:50:32.047Z] + ls [2023-11-23T20:50:32.047Z] + grep esgf-compute-api [2023-11-23T20:50:32.047Z] esgf-compute-api-devel [2023-11-23T20:50:32.047Z] + set +x [2023-11-23T20:50:32.047Z] + echo master [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + PAVICS_SDI_BRANCH=master [2023-11-23T20:50:32.047Z] + echo Ouranosinc/pavics-sdi [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + PAVICS_SDI_REPO_NAME=pavics-sdi [2023-11-23T20:50:32.047Z] + echo master [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + FINCH_BRANCH=master [2023-11-23T20:50:32.047Z] + echo bird-house/finch [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + FINCH_REPO_NAME=finch [2023-11-23T20:50:32.047Z] + echo master [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + PAVICS_LANDING_BRANCH=master [2023-11-23T20:50:32.047Z] + echo Ouranosinc/PAVICS-landing [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + PAVICS_LANDING_REPO_NAME=PAVICS-landing [2023-11-23T20:50:32.047Z] + echo main [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + RAVEN_BRANCH=main [2023-11-23T20:50:32.047Z] + echo Ouranosinc/raven [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + RAVEN_REPO_NAME=raven [2023-11-23T20:50:32.047Z] + echo master [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + RAVENPY_BRANCH=master [2023-11-23T20:50:32.047Z] + echo CSHS-CWRA/RavenPy [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + RAVENPY_REPO_NAME=RavenPy [2023-11-23T20:50:32.047Z] + echo devel [2023-11-23T20:50:32.047Z] + sed s@/@-@g [2023-11-23T20:50:32.047Z] + ESGF_COMPUTE_API_BRANCH=devel [2023-11-23T20:50:32.047Z] + echo ESGF/esgf-compute-api [2023-11-23T20:50:32.047Z] + sed s@^.*/@@g [2023-11-23T20:50:32.047Z] + ESGF_COMPUTE_API_REPO_NAME=esgf-compute-api [2023-11-23T20:50:32.047Z] + echo pavics-sdi-master [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + PAVICS_SDI_DIR=pavics-sdi-master [2023-11-23T20:50:32.047Z] + echo finch-master [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + FINCH_DIR=finch-master [2023-11-23T20:50:32.047Z] + echo PAVICS-landing-master [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + PAVICS_LANDING_DIR=PAVICS-landing-master [2023-11-23T20:50:32.047Z] + echo raven-main [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + RAVEN_DIR=raven-main [2023-11-23T20:50:32.047Z] + echo RavenPy-master [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + RAVENPY_DIR=RavenPy-master [2023-11-23T20:50:32.047Z] + echo esgf-compute-api-devel [2023-11-23T20:50:32.047Z] + sed s@[^a-zA-Z0-9_\-\.]@-@g [2023-11-23T20:50:32.047Z] + ESGF_COMPUTE_API_DIR=esgf-compute-api-devel [2023-11-23T20:50:32.047Z] + echo true [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + VERIFY_SSL=true [2023-11-23T20:50:32.047Z] + [ xtrue = xfalse ] [2023-11-23T20:50:32.047Z] + rm -v finch-master/setup.cfg [2023-11-23T20:50:32.047Z] removed 'finch-master/setup.cfg' [2023-11-23T20:50:32.047Z] + rm -v raven-main/setup.cfg [2023-11-23T20:50:32.047Z] removed 'raven-main/setup.cfg' [2023-11-23T20:50:32.047Z] + rm -v raven-main/pyproject.toml [2023-11-23T20:50:32.047Z] removed 'raven-main/pyproject.toml' [2023-11-23T20:50:32.047Z] + rm -v RavenPy-master/setup.cfg [2023-11-23T20:50:32.047Z] removed 'RavenPy-master/setup.cfg' [2023-11-23T20:50:32.047Z] + rm -v RavenPy-master/tox.ini [2023-11-23T20:50:32.047Z] removed 'RavenPy-master/tox.ini' [2023-11-23T20:50:32.047Z] + rm -v RavenPy-master/pyproject.toml [2023-11-23T20:50:32.047Z] removed 'RavenPy-master/pyproject.toml' [2023-11-23T20:50:32.047Z] + rm -v esgf-compute-api-devel/setup.cfg [2023-11-23T20:50:32.047Z] rm: cannot remove 'esgf-compute-api-devel/setup.cfg': No such file or directory [2023-11-23T20:50:32.047Z] + rm -v esgf-compute-api-devel/tox.ini [2023-11-23T20:50:32.047Z] rm: cannot remove 'esgf-compute-api-devel/tox.ini': No such file or directory [2023-11-23T20:50:32.047Z] + echo [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_MAGPIE_AUTH= [2023-11-23T20:50:32.047Z] + echo true [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_PAVICS_SDI_REPO=true [2023-11-23T20:50:32.047Z] + echo [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_PAVICS_SDI_WEAVER= [2023-11-23T20:50:32.047Z] + echo true [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_FINCH_REPO=true [2023-11-23T20:50:32.047Z] + echo true [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_PAVICS_LANDING_REPO=true [2023-11-23T20:50:32.047Z] + echo false [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_RAVEN_REPO=false [2023-11-23T20:50:32.047Z] + echo false [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_RAVENPY_REPO=false [2023-11-23T20:50:32.047Z] + echo false [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_ESGF_COMPUTE_API_REPO=false [2023-11-23T20:50:32.047Z] + echo true [2023-11-23T20:50:32.047Z] + tr [:upper:] [:lower:] [2023-11-23T20:50:32.047Z] + TEST_LOCAL_NOTEBOOKS=true [2023-11-23T20:50:32.047Z] + NOTEBOOKS_TO_TEST= [2023-11-23T20:50:32.047Z] + [ x = xtrue ] [2023-11-23T20:50:32.048Z] + [ xtrue = xtrue ] [2023-11-23T20:50:32.048Z] + NOTEBOOKS_TO_TEST= pavics-sdi-master/docs/source/notebooks/*.ipynb [2023-11-23T20:50:32.048Z] + [ x = xtrue ] [2023-11-23T20:50:32.048Z] + [ xtrue = xtrue ] [2023-11-23T20:50:32.048Z] + NOTEBOOKS_TO_TEST= pavics-sdi-master/docs/source/notebooks/*.ipynb finch-master/docs/source/notebooks/*.ipynb [2023-11-23T20:50:32.048Z] + [ xtrue = xtrue ] [2023-11-23T20:50:32.048Z] + NOTEBOOKS_TO_TEST= pavics-sdi-master/docs/source/notebooks/*.ipynb finch-master/docs/source/notebooks/*.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/*.ipynb [2023-11-23T20:50:32.048Z] + 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/notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_QS-DEC_ACCESS1-3_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_NorESM1-M_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_NorESM1-M_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_MPI-ESM-LR_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_MPI-ESM-LR_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_IPSL-CM5B-LR_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_IPSL-CM5B-LR_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_IPSL-CM5A-LR_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_IPSL-CM5A-LR_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_INM-CM4_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_INM-CM4_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_HadGEM2-CC_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_HadGEM2-CC_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_GFDL-ESM2M_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_GFDL-ESM2M_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_CanESM2_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_CanESM2_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_CMCC-CMS_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_CMCC-CMS_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_BNU-ESM_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_BNU-ESM_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_ACCESS1-3_historical+rcp85_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] inflating: /notebook_dir/writable-workspace/tmp/tutorial3/output/tx_mean_YS_ACCESS1-3_historical+rcp45_r1i1p1_na10kgrid_qm-moving-50bins-detrend_1970-2100.nc [2023-11-23T20:50:32.820Z] + HOMEPAGE_ROOT_DIR=/notebook_dir/pavics-homepage [2023-11-23T20:50:32.820Z] + mkdir -p /notebook_dir/pavics-homepage [2023-11-23T20:50:32.820Z] + ln -sv /home/jenkins/agent/workspace/emental-build-for-pascal-atelier/PAVICS-landing-master/content/notebooks/climate_indicators/tutorial_data /notebook_dir/pavics-homepage/tutorial_data [2023-11-23T20:50:32.820Z] '/notebook_dir/pavics-homepage/tutorial_data' -> '/home/jenkins/agent/workspace/emental-build-for-pascal-atelier/PAVICS-landing-master/content/notebooks/climate_indicators/tutorial_data' [2023-11-23T20:50:32.820Z] + [ xfalse = xtrue ] [2023-11-23T20:50:32.820Z] + [ xfalse = xtrue ] [2023-11-23T20:50:32.820Z] + [ xfalse = xtrue ] [2023-11-23T20:50:32.820Z] + [ xtrue = xtrue ] [2023-11-23T20:50:32.820Z] + NOTEBOOKS_TO_TEST= pavics-sdi-master/docs/source/notebooks/*.ipynb finch-master/docs/source/notebooks/*.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/*.ipynb notebooks/*.ipynb [2023-11-23T20:50:32.820Z] + ./runtest pavics-sdi-master/docs/source/notebooks/*.ipynb finch-master/docs/source/notebooks/*.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/*.ipynb notebooks/*.ipynb [2023-11-23T20:50:32.820Z] + [ -n ] [2023-11-23T20:50:32.820Z] + [ ! -z ] [2023-11-23T20:50:32.820Z] + export PYTHONWARNINGS=ignore:Unverified HTTPS request [2023-11-23T20:50:32.820Z] + py.test --nbval pavics-sdi-master/docs/source/notebooks/WCS_example.ipynb pavics-sdi-master/docs/source/notebooks/WFS_example.ipynb pavics-sdi-master/docs/source/notebooks/WMS_example.ipynb pavics-sdi-master/docs/source/notebooks/climex.ipynb pavics-sdi-master/docs/source/notebooks/eccc-geoapi-climate-stations.ipynb pavics-sdi-master/docs/source/notebooks/eccc-geoapi-xclim.ipynb pavics-sdi-master/docs/source/notebooks/esgf-dap.ipynb pavics-sdi-master/docs/source/notebooks/forecasts.ipynb pavics-sdi-master/docs/source/notebooks/jupyter_extensions.ipynb pavics-sdi-master/docs/source/notebooks/opendap.ipynb pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb pavics-sdi-master/docs/source/notebooks/regridding.ipynb pavics-sdi-master/docs/source/notebooks/rendering.ipynb pavics-sdi-master/docs/source/notebooks/subset-user-input.ipynb pavics-sdi-master/docs/source/notebooks/subsetting.ipynb finch-master/docs/source/notebooks/dap_subset.ipynb finch-master/docs/source/notebooks/finch-usage.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb notebooks/hummingbird.ipynb notebooks/stress-tests.ipynb --sanitize-with notebooks/output-sanitize.cfg [2023-11-23T20:50:37.005Z] ============================= test session starts ============================== [2023-11-23T20:50:37.005Z] platform linux -- Python 3.9.16, pytest-7.3.1, pluggy-1.0.0 [2023-11-23T20:50:37.006Z] rootdir: /home/jenkins/agent/workspace/emental-build-for-pascal-atelier [2023-11-23T20:50:37.006Z] plugins: anyio-3.6.1, dash-2.10.0, nbval-0.9.6, tornasync-0.6.0.post2, xdist-3.3.1 [2023-11-23T20:50:37.006Z] collected 216 items [2023-11-23T20:50:37.006Z] [2023-11-23T20:50:45.162Z] pavics-sdi-master/docs/source/notebooks/WCS_example.ipynb ....... [ 3%] [2023-11-23T20:50:53.164Z] pavics-sdi-master/docs/source/notebooks/WFS_example.ipynb ...... [ 6%] [2023-11-23T20:51:02.747Z] pavics-sdi-master/docs/source/notebooks/WMS_example.ipynb ........ [ 9%] [2023-11-23T20:53:45.758Z] pavics-sdi-master/docs/source/notebooks/climex.ipynb ............ [ 15%] [2023-11-23T20:53:45.758Z] pavics-sdi-master/docs/source/notebooks/eccc-geoapi-climate-stations.ipynb . [ 15%] [2023-11-23T20:53:53.085Z] ............... [ 22%] [2023-11-23T20:54:01.716Z] pavics-sdi-master/docs/source/notebooks/eccc-geoapi-xclim.ipynb ..... [ 25%] [2023-11-23T20:54:08.587Z] pavics-sdi-master/docs/source/notebooks/esgf-dap.ipynb ...... [ 27%] [2023-11-23T20:54:24.347Z] pavics-sdi-master/docs/source/notebooks/forecasts.ipynb ...... [ 30%] [2023-11-23T20:54:25.715Z] pavics-sdi-master/docs/source/notebooks/jupyter_extensions.ipynb . [ 31%] [2023-11-23T20:54:30.839Z] pavics-sdi-master/docs/source/notebooks/opendap.ipynb ....... [ 34%] [2023-11-23T20:54:34.613Z] pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb ..FF. [ 36%] [2023-11-23T20:55:19.464Z] pavics-sdi-master/docs/source/notebooks/regridding.ipynb ............... [ 43%] [2023-11-23T20:56:28.779Z] ............. [ 49%] [2023-11-23T20:56:31.796Z] pavics-sdi-master/docs/source/notebooks/rendering.ipynb .... [ 51%] [2023-11-23T20:56:34.354Z] pavics-sdi-master/docs/source/notebooks/subset-user-input.ipynb ........ [ 55%] [2023-11-23T20:56:51.639Z] ................. [ 62%] [2023-11-23T20:56:58.655Z] pavics-sdi-master/docs/source/notebooks/subsetting.ipynb ...... [ 65%] [2023-11-23T20:57:07.634Z] finch-master/docs/source/notebooks/dap_subset.ipynb ........... [ 70%] [2023-11-23T20:57:15.530Z] finch-master/docs/source/notebooks/finch-usage.ipynb ...... [ 73%] [2023-11-23T20:57:16.902Z] PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb . [ 74%] [2023-11-23T20:57:19.949Z] ...... [ 76%] [2023-11-23T20:57:26.512Z] PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb . [ 77%] [2023-11-23T20:57:39.490Z] ............. [ 83%] [2023-11-23T20:57:49.457Z] PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb . [ 83%] [2023-11-23T20:58:26.241Z] ....s. [ 86%] [2023-11-23T20:58:32.788Z] PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb . [ 87%] [2023-11-23T20:58:44.637Z] ... [ 88%] [2023-11-23T20:58:56.826Z] PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb . [ 88%] [2023-11-23T20:59:18.368Z] ...... [ 91%] [2023-11-23T20:59:21.281Z] notebooks/hummingbird.ipynb ............ [ 97%] [2023-11-23T21:01:16.134Z] notebooks/stress-tests.ipynb ...... [100%] [2023-11-23T21:01:16.134Z] [2023-11-23T21:01:16.134Z] =================================== FAILURES =================================== [2023-11-23T21:01:16.134Z] _____ pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb::Cell 2 _____ [2023-11-23T21:01:16.134Z] Notebook cell execution failed [2023-11-23T21:01:16.134Z] Cell 2: Cell execution caused an exception [2023-11-23T21:01:16.134Z] [2023-11-23T21:01:16.134Z] Input: [2023-11-23T21:01:16.134Z] from webob.exc import HTTPError [2023-11-23T21:01:16.134Z] [2023-11-23T21:01:16.134Z] SECURED_URL = f"{THREDDS_URL}/dodsC/birdhouse/testdata/secure/tasmax_Amon_MPI-ESM-MR_rcp45_r2i1p1_200601-200612.nc" [2023-11-23T21:01:16.134Z] try: [2023-11-23T21:01:16.134Z] ds = xr.open_dataset(SECURED_URL, decode_cf=False) [2023-11-23T21:01:16.134Z] # depending on 'xarray' version, differnt errors are raised when failing authentication according on how they handle it [2023-11-23T21:01:16.134Z] except OSError as exc: [2023-11-23T21:01:16.134Z] # "NetCDF: Access failure" xarrar >= 0.20 [2023-11-23T21:01:16.134Z] # "Authorization failure" xarray < 0.17 [2023-11-23T21:01:16.134Z] assert "NetCDF: Access failure" in str(exc) or "Authorization failure" in str(exc) [2023-11-23T21:01:16.134Z] except HTTPError as exc: # xarray >= 0.17 [2023-11-23T21:01:16.135Z] # note: raised error is 500 with 'message' Unauthorized instead of directly raising HTTPUnauthorized [2023-11-23T21:01:16.135Z] assert "401 Unauthorized" in str(exc) [2023-11-23T21:01:16.135Z] else: [2023-11-23T21:01:16.135Z] raise RuntimeError( [2023-11-23T21:01:16.135Z] "Expected unauthorized response, but dataset open operation did not raise!" [2023-11-23T21:01:16.135Z] ) [2023-11-23T21:01:16.135Z] print("Unauthorized was raised as expected.") [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] Traceback: [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] --------------------------------------------------------------------------- [2023-11-23T21:01:16.135Z] RuntimeError Traceback (most recent call last) [2023-11-23T21:01:16.135Z] Cell In[3], line 15 [2023-11-23T21:01:16.135Z]  13 assert "401 Unauthorized" in str(exc) [2023-11-23T21:01:16.135Z]  14 else: [2023-11-23T21:01:16.135Z] ---> 15 raise RuntimeError( [2023-11-23T21:01:16.135Z]  16 "Expected unauthorized response, but dataset open operation did not raise!" [2023-11-23T21:01:16.135Z]  17 ) [2023-11-23T21:01:16.135Z]  18 print("Unauthorized was raised as expected.") [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] RuntimeError: Expected unauthorized response, but dataset open operation did not raise! [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] _____ pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb::Cell 3 _____ [2023-11-23T21:01:16.135Z] Notebook cell execution failed [2023-11-23T21:01:16.135Z] Cell 3: Cell execution caused an exception [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] Input: [2023-11-23T21:01:16.135Z] import requests [2023-11-23T21:01:16.135Z] from requests_magpie import MagpieAuth, MagpieAuthenticationError [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] BAD_USR = "an-invalid-user" [2023-11-23T21:01:16.135Z] BAD_PWD = "or-bad-password" [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] try: [2023-11-23T21:01:16.135Z] with requests.session() as session: [2023-11-23T21:01:16.135Z] session.auth = MagpieAuth(f"https://{PAVICS_HOST}/magpie", BAD_USR, BAD_PWD) [2023-11-23T21:01:16.135Z] xr.open_dataset( [2023-11-23T21:01:16.135Z] SECURED_URL, decode_cf=False [2023-11-23T21:01:16.135Z] ) # Attributes are problematic with this file. [2023-11-23T21:01:16.135Z] # specific error depends on what raises (unauthorized, forbidden, login failure) and 'xarray' version [2023-11-23T21:01:16.135Z] except (OSError, HTTPError, MagpieAuthenticationError) as exc: [2023-11-23T21:01:16.135Z] print("Access with invalid credentials was not permitted as expected.") [2023-11-23T21:01:16.135Z] else: [2023-11-23T21:01:16.135Z] raise RuntimeError( [2023-11-23T21:01:16.135Z] "Expected authentication failure response, but login operation did not raise!" [2023-11-23T21:01:16.135Z] ) [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] Traceback: [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] --------------------------------------------------------------------------- [2023-11-23T21:01:16.135Z] RuntimeError Traceback (most recent call last) [2023-11-23T21:01:16.135Z] Cell In[4], line 17 [2023-11-23T21:01:16.135Z]  15 print("Access with invalid credentials was not permitted as expected.") [2023-11-23T21:01:16.135Z]  16 else: [2023-11-23T21:01:16.135Z] ---> 17 raise RuntimeError( [2023-11-23T21:01:16.135Z]  18 "Expected authentication failure response, but login operation did not raise!" [2023-11-23T21:01:16.135Z]  19 ) [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] RuntimeError: Expected authentication failure response, but login operation did not raise! [2023-11-23T21:01:16.135Z] [2023-11-23T21:01:16.135Z] =========================== short test summary info ============================ [2023-11-23T21:01:16.135Z] FAILED pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb::Cell 2 [2023-11-23T21:01:16.135Z] FAILED pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb::Cell 3 [2023-11-23T21:01:16.135Z] ============= 2 failed, 213 passed, 1 skipped in 638.84s (0:10:38) ============= [2023-11-23T21:01:16.135Z] + EXIT_CODE=1 [2023-11-23T21:01:16.135Z] + echo true [2023-11-23T21:01:16.135Z] + tr [:upper:] [:lower:] [2023-11-23T21:01:16.135Z] + SAVE_RESULTING_NOTEBOOK=true [2023-11-23T21:01:16.135Z] + [ xtrue = xtrue ] [2023-11-23T21:01:16.135Z] + mkdir -p buildout [2023-11-23T21:01:16.135Z] + basename pavics-sdi-master/docs/source/notebooks/WCS_example.ipynb [2023-11-23T21:01:16.135Z] + filename=WCS_example.ipynb [2023-11-23T21:01:16.135Z] + echo WCS_example.ipynb [2023-11-23T21:01:16.135Z] + sed s/.ipynb$// [2023-11-23T21:01:16.135Z] + filename=WCS_example [2023-11-23T21:01:16.135Z] + [ -e buildout/WCS_example.output.ipynb ] [2023-11-23T21:01:16.135Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output WCS_example.output.ipynb pavics-sdi-master/docs/source/notebooks/WCS_example.ipynb [2023-11-23T21:01:17.499Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/WCS_example.ipynb to notebook [2023-11-23T21:01:27.508Z] [NbConvertApp] Writing 145351 bytes to buildout/WCS_example.output.ipynb [2023-11-23T21:01:27.508Z] + basename pavics-sdi-master/docs/source/notebooks/WFS_example.ipynb [2023-11-23T21:01:27.508Z] + filename=WFS_example.ipynb [2023-11-23T21:01:27.508Z] + echo WFS_example.ipynb [2023-11-23T21:01:27.508Z] + sed s/.ipynb$// [2023-11-23T21:01:27.508Z] + filename=WFS_example [2023-11-23T21:01:27.508Z] + [ -e buildout/WFS_example.output.ipynb ] [2023-11-23T21:01:27.508Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output WFS_example.output.ipynb pavics-sdi-master/docs/source/notebooks/WFS_example.ipynb [2023-11-23T21:01:28.924Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/WFS_example.ipynb to notebook [2023-11-23T21:01:38.877Z] [NbConvertApp] Writing 44572 bytes to buildout/WFS_example.output.ipynb [2023-11-23T21:01:38.877Z] + basename pavics-sdi-master/docs/source/notebooks/WMS_example.ipynb [2023-11-23T21:01:38.877Z] + filename=WMS_example.ipynb [2023-11-23T21:01:38.877Z] + echo WMS_example.ipynb [2023-11-23T21:01:38.877Z] + sed s/.ipynb$// [2023-11-23T21:01:38.877Z] + filename=WMS_example [2023-11-23T21:01:38.878Z] + [ -e buildout/WMS_example.output.ipynb ] [2023-11-23T21:01:38.878Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output WMS_example.output.ipynb pavics-sdi-master/docs/source/notebooks/WMS_example.ipynb [2023-11-23T21:01:40.767Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/WMS_example.ipynb to notebook [2023-11-23T21:01:50.722Z] [NbConvertApp] Writing 2048313 bytes to buildout/WMS_example.output.ipynb [2023-11-23T21:01:50.722Z] + basename pavics-sdi-master/docs/source/notebooks/climex.ipynb [2023-11-23T21:01:50.722Z] + filename=climex.ipynb [2023-11-23T21:01:50.722Z] + echo climex.ipynb [2023-11-23T21:01:50.722Z] + sed s/.ipynb$// [2023-11-23T21:01:50.722Z] + filename=climex [2023-11-23T21:01:50.722Z] + [ -e buildout/climex.output.ipynb ] [2023-11-23T21:01:50.722Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output climex.output.ipynb pavics-sdi-master/docs/source/notebooks/climex.ipynb [2023-11-23T21:01:52.620Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/climex.ipynb to notebook [2023-11-23T21:04:44.122Z] [NbConvertApp] Writing 1779269 bytes to buildout/climex.output.ipynb [2023-11-23T21:04:44.122Z] + basename pavics-sdi-master/docs/source/notebooks/eccc-geoapi-climate-stations.ipynb [2023-11-23T21:04:44.122Z] + filename=eccc-geoapi-climate-stations.ipynb [2023-11-23T21:04:44.122Z] + echo eccc-geoapi-climate-stations.ipynb [2023-11-23T21:04:44.122Z] + sed s/.ipynb$// [2023-11-23T21:04:44.122Z] + filename=eccc-geoapi-climate-stations [2023-11-23T21:04:44.122Z] + [ -e buildout/eccc-geoapi-climate-stations.output.ipynb ] [2023-11-23T21:04:44.122Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output eccc-geoapi-climate-stations.output.ipynb pavics-sdi-master/docs/source/notebooks/eccc-geoapi-climate-stations.ipynb [2023-11-23T21:04:44.122Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/eccc-geoapi-climate-stations.ipynb to notebook [2023-11-23T21:04:44.122Z] [NbConvertApp] Writing 278813 bytes to buildout/eccc-geoapi-climate-stations.output.ipynb [2023-11-23T21:04:44.122Z] + basename pavics-sdi-master/docs/source/notebooks/eccc-geoapi-xclim.ipynb [2023-11-23T21:04:44.122Z] + filename=eccc-geoapi-xclim.ipynb [2023-11-23T21:04:44.122Z] + echo eccc-geoapi-xclim.ipynb [2023-11-23T21:04:44.122Z] + sed s/.ipynb$// [2023-11-23T21:04:44.122Z] + filename=eccc-geoapi-xclim [2023-11-23T21:04:44.122Z] + [ -e buildout/eccc-geoapi-xclim.output.ipynb ] [2023-11-23T21:04:44.122Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output eccc-geoapi-xclim.output.ipynb pavics-sdi-master/docs/source/notebooks/eccc-geoapi-xclim.ipynb [2023-11-23T21:04:45.583Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/eccc-geoapi-xclim.ipynb to notebook [2023-11-23T21:04:57.781Z] [NbConvertApp] Writing 108200 bytes to buildout/eccc-geoapi-xclim.output.ipynb [2023-11-23T21:04:57.782Z] + basename pavics-sdi-master/docs/source/notebooks/esgf-dap.ipynb [2023-11-23T21:04:57.782Z] + filename=esgf-dap.ipynb [2023-11-23T21:04:57.782Z] + sed s/.ipynb$// [2023-11-23T21:04:57.782Z] + echo esgf-dap.ipynb [2023-11-23T21:04:57.782Z] + filename=esgf-dap [2023-11-23T21:04:57.782Z] + [ -e buildout/esgf-dap.output.ipynb ] [2023-11-23T21:04:57.782Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output esgf-dap.output.ipynb pavics-sdi-master/docs/source/notebooks/esgf-dap.ipynb [2023-11-23T21:04:58.037Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/esgf-dap.ipynb to notebook [2023-11-23T21:05:07.987Z] [NbConvertApp] Writing 63764 bytes to buildout/esgf-dap.output.ipynb [2023-11-23T21:05:07.987Z] + basename pavics-sdi-master/docs/source/notebooks/forecasts.ipynb [2023-11-23T21:05:07.987Z] + filename=forecasts.ipynb [2023-11-23T21:05:07.987Z] + echo forecasts.ipynb [2023-11-23T21:05:07.987Z] + sed s/.ipynb$// [2023-11-23T21:05:07.987Z] + filename=forecasts [2023-11-23T21:05:07.987Z] + [ -e buildout/forecasts.output.ipynb ] [2023-11-23T21:05:07.987Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output forecasts.output.ipynb pavics-sdi-master/docs/source/notebooks/forecasts.ipynb [2023-11-23T21:05:08.919Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/forecasts.ipynb to notebook [2023-11-23T21:05:26.992Z] [NbConvertApp] Writing 7633997 bytes to buildout/forecasts.output.ipynb [2023-11-23T21:05:26.992Z] + basename pavics-sdi-master/docs/source/notebooks/jupyter_extensions.ipynb [2023-11-23T21:05:26.992Z] + filename=jupyter_extensions.ipynb [2023-11-23T21:05:26.992Z] + echo jupyter_extensions.ipynb [2023-11-23T21:05:26.992Z] + sed s/.ipynb$// [2023-11-23T21:05:26.992Z] + filename=jupyter_extensions [2023-11-23T21:05:26.992Z] + [ -e buildout/jupyter_extensions.output.ipynb ] [2023-11-23T21:05:26.992Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output jupyter_extensions.output.ipynb pavics-sdi-master/docs/source/notebooks/jupyter_extensions.ipynb [2023-11-23T21:05:27.933Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/jupyter_extensions.ipynb to notebook [2023-11-23T21:05:30.473Z] [NbConvertApp] Writing 8110 bytes to buildout/jupyter_extensions.output.ipynb [2023-11-23T21:05:30.730Z] + basename pavics-sdi-master/docs/source/notebooks/opendap.ipynb [2023-11-23T21:05:30.730Z] + filename=opendap.ipynb [2023-11-23T21:05:30.730Z] + echo opendap.ipynb [2023-11-23T21:05:30.730Z] + sed s/.ipynb$// [2023-11-23T21:05:30.730Z] + filename=opendap [2023-11-23T21:05:30.730Z] + [ -e buildout/opendap.output.ipynb ] [2023-11-23T21:05:30.730Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output opendap.output.ipynb pavics-sdi-master/docs/source/notebooks/opendap.ipynb [2023-11-23T21:05:32.623Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/opendap.ipynb to notebook [2023-11-23T21:05:39.240Z] [NbConvertApp] Writing 95187 bytes to buildout/opendap.output.ipynb [2023-11-23T21:05:39.240Z] + basename pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb [2023-11-23T21:05:39.240Z] + filename=pavics_thredds.ipynb [2023-11-23T21:05:39.240Z] + echo pavics_thredds.ipynb [2023-11-23T21:05:39.240Z] + sed s/.ipynb$// [2023-11-23T21:05:39.240Z] + filename=pavics_thredds [2023-11-23T21:05:39.240Z] + [ -e buildout/pavics_thredds.output.ipynb ] [2023-11-23T21:05:39.240Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output pavics_thredds.output.ipynb pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb [2023-11-23T21:05:40.166Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/pavics_thredds.ipynb to notebook [2023-11-23T21:05:45.442Z] [NbConvertApp] Writing 92258 bytes to buildout/pavics_thredds.output.ipynb [2023-11-23T21:05:45.705Z] + basename pavics-sdi-master/docs/source/notebooks/regridding.ipynb [2023-11-23T21:05:45.705Z] + filename=regridding.ipynb [2023-11-23T21:05:45.705Z] + echo regridding.ipynb [2023-11-23T21:05:45.705Z] + sed s/.ipynb$// [2023-11-23T21:05:45.705Z] + filename=regridding [2023-11-23T21:05:45.705Z] + [ -e buildout/regridding.output.ipynb ] [2023-11-23T21:05:45.705Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output regridding.output.ipynb pavics-sdi-master/docs/source/notebooks/regridding.ipynb [2023-11-23T21:05:47.602Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/regridding.ipynb to notebook [2023-11-23T21:07:39.021Z] [NbConvertApp] Writing 1243808 bytes to buildout/regridding.output.ipynb [2023-11-23T21:07:39.021Z] + basename pavics-sdi-master/docs/source/notebooks/rendering.ipynb [2023-11-23T21:07:39.021Z] + filename=rendering.ipynb [2023-11-23T21:07:39.021Z] + echo rendering.ipynb [2023-11-23T21:07:39.021Z] + sed s/.ipynb$// [2023-11-23T21:07:39.021Z] + filename=rendering [2023-11-23T21:07:39.021Z] + [ -e buildout/rendering.output.ipynb ] [2023-11-23T21:07:39.021Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output rendering.output.ipynb pavics-sdi-master/docs/source/notebooks/rendering.ipynb [2023-11-23T21:07:39.021Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/rendering.ipynb to notebook [2023-11-23T21:07:43.200Z] [NbConvertApp] Writing 11801 bytes to buildout/rendering.output.ipynb [2023-11-23T21:07:43.457Z] + basename pavics-sdi-master/docs/source/notebooks/subset-user-input.ipynb [2023-11-23T21:07:43.457Z] + filename=subset-user-input.ipynb [2023-11-23T21:07:43.457Z] + echo subset-user-input.ipynb [2023-11-23T21:07:43.457Z] + sed s/.ipynb$// [2023-11-23T21:07:43.457Z] + filename=subset-user-input [2023-11-23T21:07:43.457Z] + [ -e buildout/subset-user-input.output.ipynb ] [2023-11-23T21:07:43.457Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output subset-user-input.output.ipynb pavics-sdi-master/docs/source/notebooks/subset-user-input.ipynb [2023-11-23T21:07:45.348Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/subset-user-input.ipynb to notebook [2023-11-23T21:08:07.352Z] [NbConvertApp] Writing 7732236 bytes to buildout/subset-user-input.output.ipynb [2023-11-23T21:08:07.352Z] + basename pavics-sdi-master/docs/source/notebooks/subsetting.ipynb [2023-11-23T21:08:07.352Z] + filename=subsetting.ipynb [2023-11-23T21:08:07.352Z] + echo subsetting.ipynb [2023-11-23T21:08:07.352Z] + sed s/.ipynb$// [2023-11-23T21:08:07.352Z] + filename=subsetting [2023-11-23T21:08:07.352Z] + [ -e buildout/subsetting.output.ipynb ] [2023-11-23T21:08:07.352Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output subsetting.output.ipynb pavics-sdi-master/docs/source/notebooks/subsetting.ipynb [2023-11-23T21:08:07.352Z] [NbConvertApp] Converting notebook pavics-sdi-master/docs/source/notebooks/subsetting.ipynb to notebook [2023-11-23T21:08:15.463Z] [NbConvertApp] Writing 93341 bytes to buildout/subsetting.output.ipynb [2023-11-23T21:08:15.463Z] + basename finch-master/docs/source/notebooks/dap_subset.ipynb [2023-11-23T21:08:15.463Z] + filename=dap_subset.ipynb [2023-11-23T21:08:15.463Z] + echo dap_subset.ipynb [2023-11-23T21:08:15.463Z] + sed s/.ipynb$// [2023-11-23T21:08:15.463Z] + filename=dap_subset [2023-11-23T21:08:15.463Z] + [ -e buildout/dap_subset.output.ipynb ] [2023-11-23T21:08:15.463Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output dap_subset.output.ipynb finch-master/docs/source/notebooks/dap_subset.ipynb [2023-11-23T21:08:16.834Z] [NbConvertApp] Converting notebook finch-master/docs/source/notebooks/dap_subset.ipynb to notebook [2023-11-23T21:08:26.802Z] [NbConvertApp] Writing 163011 bytes to buildout/dap_subset.output.ipynb [2023-11-23T21:08:26.802Z] + basename finch-master/docs/source/notebooks/finch-usage.ipynb [2023-11-23T21:08:26.802Z] + filename=finch-usage.ipynb [2023-11-23T21:08:26.802Z] + echo finch-usage.ipynb [2023-11-23T21:08:26.802Z] + sed s/.ipynb$// [2023-11-23T21:08:26.802Z] + filename=finch-usage [2023-11-23T21:08:26.802Z] + [ -e buildout/finch-usage.output.ipynb ] [2023-11-23T21:08:26.803Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output finch-usage.output.ipynb finch-master/docs/source/notebooks/finch-usage.ipynb [2023-11-23T21:08:28.710Z] [NbConvertApp] Converting notebook finch-master/docs/source/notebooks/finch-usage.ipynb to notebook [2023-11-23T21:08:38.926Z] [NbConvertApp] Writing 65128 bytes to buildout/finch-usage.output.ipynb [2023-11-23T21:08:38.926Z] + basename PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb [2023-11-23T21:08:38.926Z] + filename=PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb [2023-11-23T21:08:38.926Z] + echo PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb [2023-11-23T21:08:38.926Z] + sed s/.ipynb$// [2023-11-23T21:08:38.926Z] + filename=PAVICStutorial_ClimateDataAnalysis-1DataAccess [2023-11-23T21:08:38.926Z] + [ -e buildout/PAVICStutorial_ClimateDataAnalysis-1DataAccess.output.ipynb ] [2023-11-23T21:08:38.926Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output PAVICStutorial_ClimateDataAnalysis-1DataAccess.output.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb [2023-11-23T21:08:39.855Z] [NbConvertApp] Converting notebook PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-1DataAccess.ipynb to notebook [2023-11-23T21:08:46.404Z] [NbConvertApp] Writing 173182 bytes to buildout/PAVICStutorial_ClimateDataAnalysis-1DataAccess.output.ipynb [2023-11-23T21:08:46.404Z] + basename PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb [2023-11-23T21:08:46.404Z] + filename=PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb [2023-11-23T21:08:46.404Z] + echo PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb [2023-11-23T21:08:46.404Z] + sed s/.ipynb$// [2023-11-23T21:08:46.404Z] + filename=PAVICStutorial_ClimateDataAnalysis-2Subsetting [2023-11-23T21:08:46.404Z] + [ -e buildout/PAVICStutorial_ClimateDataAnalysis-2Subsetting.output.ipynb ] [2023-11-23T21:08:46.404Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output PAVICStutorial_ClimateDataAnalysis-2Subsetting.output.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb [2023-11-23T21:08:47.784Z] [NbConvertApp] Converting notebook PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-2Subsetting.ipynb to notebook [2023-11-23T21:09:14.345Z] [NbConvertApp] Writing 1481485 bytes to buildout/PAVICStutorial_ClimateDataAnalysis-2Subsetting.output.ipynb [2023-11-23T21:09:14.345Z] + basename PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb [2023-11-23T21:09:14.345Z] + filename=PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb [2023-11-23T21:09:14.345Z] + echo PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb [2023-11-23T21:09:14.345Z] + sed s/.ipynb$// [2023-11-23T21:09:14.345Z] + filename=PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators [2023-11-23T21:09:14.345Z] + [ -e buildout/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.output.ipynb ] [2023-11-23T21:09:14.345Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.output.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb [2023-11-23T21:09:14.345Z] [NbConvertApp] Converting notebook PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-3Climate-Indicators.ipynb to notebook [2023-11-23T21:14:05.851Z] [NbConvertApp] ERROR | Timeout waiting for execute reply (240s). [2023-11-23T21:14:05.851Z] Traceback (most recent call last): [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbclient/client.py", line 778, in _async_poll_for_reply [2023-11-23T21:14:05.851Z] msg = await ensure_async(self.kc.shell_channel.get_msg(timeout=new_timeout)) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/jupyter_core/utils/__init__.py", line 182, in ensure_async [2023-11-23T21:14:05.851Z] result = await obj [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/jupyter_client/channels.py", line 230, in get_msg [2023-11-23T21:14:05.851Z] raise Empty [2023-11-23T21:14:05.851Z] _queue.Empty [2023-11-23T21:14:05.851Z] [2023-11-23T21:14:05.851Z] During handling of the above exception, another exception occurred: [2023-11-23T21:14:05.851Z] [2023-11-23T21:14:05.851Z] Traceback (most recent call last): [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/bin/jupyter-nbconvert", line 10, in [2023-11-23T21:14:05.851Z] sys.exit(main()) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/jupyter_core/application.py", line 277, in launch_instance [2023-11-23T21:14:05.851Z] return super().launch_instance(argv=argv, **kwargs) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/traitlets/config/application.py", line 1043, in launch_instance [2023-11-23T21:14:05.851Z] app.start() [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/nbconvertapp.py", line 414, in start [2023-11-23T21:14:05.851Z] self.convert_notebooks() [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/nbconvertapp.py", line 589, in convert_notebooks [2023-11-23T21:14:05.851Z] self.convert_single_notebook(notebook_filename) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/nbconvertapp.py", line 555, in convert_single_notebook [2023-11-23T21:14:05.851Z] output, resources = self.export_single_notebook( [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/nbconvertapp.py", line 481, in export_single_notebook [2023-11-23T21:14:05.851Z] output, resources = self.exporter.from_filename( [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/exporters/exporter.py", line 201, in from_filename [2023-11-23T21:14:05.851Z] return self.from_file(f, resources=resources, **kw) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/exporters/exporter.py", line 220, in from_file [2023-11-23T21:14:05.851Z] return self.from_notebook_node( [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/exporters/notebook.py", line 36, in from_notebook_node [2023-11-23T21:14:05.851Z] nb_copy, resources = super().from_notebook_node(nb, resources, **kw) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/exporters/exporter.py", line 154, in from_notebook_node [2023-11-23T21:14:05.851Z] nb_copy, resources = self._preprocess(nb_copy, resources) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/exporters/exporter.py", line 352, in _preprocess [2023-11-23T21:14:05.851Z] nbc, resc = preprocessor(nbc, resc) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/preprocessors/base.py", line 48, in __call__ [2023-11-23T21:14:05.851Z] return self.preprocess(nb, resources) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/preprocessors/execute.py", line 100, in preprocess [2023-11-23T21:14:05.851Z] self.preprocess_cell(cell, resources, index) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbconvert/preprocessors/execute.py", line 121, in preprocess_cell [2023-11-23T21:14:05.851Z] cell = self.execute_cell(cell, index, store_history=True) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/jupyter_core/utils/__init__.py", line 166, in wrapped [2023-11-23T21:14:05.851Z] return loop.run_until_complete(inner) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/asyncio/base_events.py", line 647, in run_until_complete [2023-11-23T21:14:05.851Z] return future.result() [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbclient/client.py", line 1001, in async_execute_cell [2023-11-23T21:14:05.851Z] exec_reply = await self.task_poll_for_reply [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbclient/client.py", line 802, in _async_poll_for_reply [2023-11-23T21:14:05.851Z] error_on_timeout_execute_reply = await self._async_handle_timeout(timeout, cell) [2023-11-23T21:14:05.851Z] File "/opt/conda/envs/birdy/lib/python3.9/site-packages/nbclient/client.py", line 852, in _async_handle_timeout [2023-11-23T21:14:05.851Z] raise CellTimeoutError.error_from_timeout_and_cell( [2023-11-23T21:14:05.851Z] nbclient.exceptions.CellTimeoutError: A cell timed out while it was being executed, after 240 seconds. [2023-11-23T21:14:05.851Z] The message was: Cell execution timed out. [2023-11-23T21:14:05.851Z] Here is a preview of the cell contents: [2023-11-23T21:14:05.851Z] ------------------- [2023-11-23T21:14:05.851Z] ['# NBVAL_SKIP', '', '', '# We define a small sub-function for xclim.atmos indicator calculation and export to netcdf.', '# compute=False results in returning a dask.delayed object : computation is not immediately executed.'] [2023-11-23T21:14:05.851Z] ... [2023-11-23T21:14:05.851Z] [' print("computing with dask client ...")', ' compute(jobs)', ' print("finished")', ' # optionally restart the client when finished (can help ensure good memory management)', ' client.restart()'] [2023-11-23T21:14:05.851Z] ------------------- [2023-11-23T21:14:05.852Z] [2023-11-23T21:14:05.852Z] + basename PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb [2023-11-23T21:14:05.852Z] + filename=PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb [2023-11-23T21:14:05.852Z] + echo PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb [2023-11-23T21:14:05.852Z] + sed s/.ipynb$// [2023-11-23T21:14:05.852Z] + filename=PAVICStutorial_ClimateDataAnalysis-4Ensembles [2023-11-23T21:14:05.852Z] + [ -e buildout/PAVICStutorial_ClimateDataAnalysis-4Ensembles.output.ipynb ] [2023-11-23T21:14:05.852Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output PAVICStutorial_ClimateDataAnalysis-4Ensembles.output.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb [2023-11-23T21:14:05.852Z] [NbConvertApp] Converting notebook PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-4Ensembles.ipynb to notebook [2023-11-23T21:14:27.756Z] [NbConvertApp] Writing 689802 bytes to buildout/PAVICStutorial_ClimateDataAnalysis-4Ensembles.output.ipynb [2023-11-23T21:14:27.756Z] + basename PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb [2023-11-23T21:14:27.756Z] + filename=PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb [2023-11-23T21:14:27.756Z] + echo PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb [2023-11-23T21:14:27.756Z] + sed s/.ipynb$// [2023-11-23T21:14:27.757Z] + filename=PAVICStutorial_ClimateDataAnalysis-5Visualization [2023-11-23T21:14:27.757Z] + [ -e buildout/PAVICStutorial_ClimateDataAnalysis-5Visualization.output.ipynb ] [2023-11-23T21:14:27.757Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output PAVICStutorial_ClimateDataAnalysis-5Visualization.output.ipynb PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb [2023-11-23T21:14:27.757Z] [NbConvertApp] Converting notebook PAVICS-landing-master/content/notebooks/climate_indicators/PAVICStutorial_ClimateDataAnalysis-5Visualization.ipynb to notebook [2023-11-23T21:15:06.458Z] [NbConvertApp] Writing 979260 bytes to buildout/PAVICStutorial_ClimateDataAnalysis-5Visualization.output.ipynb [2023-11-23T21:15:06.458Z] + basename notebooks/hummingbird.ipynb [2023-11-23T21:15:06.458Z] + filename=hummingbird.ipynb [2023-11-23T21:15:06.458Z] + sed s/.ipynb$// [2023-11-23T21:15:06.458Z] + echo hummingbird.ipynb [2023-11-23T21:15:06.458Z] + filename=hummingbird [2023-11-23T21:15:06.458Z] + [ -e buildout/hummingbird.output.ipynb ] [2023-11-23T21:15:06.458Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output hummingbird.output.ipynb notebooks/hummingbird.ipynb [2023-11-23T21:15:06.458Z] [NbConvertApp] Converting notebook notebooks/hummingbird.ipynb to notebook [2023-11-23T21:15:09.755Z] [NbConvertApp] Writing 15863 bytes to buildout/hummingbird.output.ipynb [2023-11-23T21:15:09.755Z] + basename notebooks/stress-tests.ipynb [2023-11-23T21:15:09.755Z] + filename=stress-tests.ipynb [2023-11-23T21:15:09.755Z] + echo stress-tests.ipynb [2023-11-23T21:15:09.755Z] + sed s/.ipynb$// [2023-11-23T21:15:09.755Z] + filename=stress-tests [2023-11-23T21:15:09.755Z] + [ -e buildout/stress-tests.output.ipynb ] [2023-11-23T21:15:09.755Z] + jupyter nbconvert --to notebook --execute --ExecutePreprocessor.timeout=240 --allow-errors --output-dir buildout --output stress-tests.output.ipynb notebooks/stress-tests.ipynb [2023-11-23T21:15:11.659Z] [NbConvertApp] Converting notebook notebooks/stress-tests.ipynb to notebook [2023-11-23T21:17:03.073Z] [NbConvertApp] Writing 424212 bytes to buildout/stress-tests.output.ipynb [2023-11-23T21:17:03.073Z] + exit 1 [2023-11-23T21:17:03.073Z] + EXIT_CODE=1 [2023-11-23T21:17:03.073Z] + ENV_DUMP_DIR=buildout/env-dump [2023-11-23T21:17:03.073Z] + mkdir -p buildout/env-dump [2023-11-23T21:17:03.073Z] + ENV_EXPORT_FILE=buildout/env-dump/environment-export-birdy.yml [2023-11-23T21:17:03.073Z] + rm -fv buildout/env-dump/environment-export-birdy.yml [2023-11-23T21:17:03.073Z] + conda env export -n birdy [2023-11-23T21:17:24.983Z] + LIST_EXPLICIT_FILE=buildout/env-dump/conda-list-explicit-birdy.txt [2023-11-23T21:17:24.983Z] + rm -fv buildout/env-dump/conda-list-explicit-birdy.txt [2023-11-23T21:17:24.983Z] + conda list -n birdy --explicit [2023-11-23T21:17:37.168Z] + PIP_FREEZE_FILE=buildout/env-dump/pip-freeze-birdy-requirements.txt [2023-11-23T21:17:37.168Z] + rm -fv buildout/env-dump/pip-freeze-birdy-requirements.txt [2023-11-23T21:17:37.168Z] + pip freeze [2023-11-23T21:17:37.168Z] + exit 1 [Pipeline] } [Pipeline] // withCredentials [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] archiveArtifacts [2023-11-23T21:17:38.045Z] Archiving artifacts [2023-11-23T21:17:38.072Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:38.323Z] Archiving artifacts [2023-11-23T21:17:40.370Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:40.956Z] Archiving artifacts [2023-11-23T21:17:41.072Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:41.398Z] Archiving artifacts [2023-11-23T21:17:41.416Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:41.534Z] Archiving artifacts [2023-11-23T21:17:41.624Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:41.942Z] Archiving artifacts [2023-11-23T21:17:42.917Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:43.713Z] Archiving artifacts [2023-11-23T21:17:43.800Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:44.059Z] Archiving artifacts [2023-11-23T21:17:44.098Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:44.445Z] Archiving artifacts [2023-11-23T21:17:44.919Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:45.152Z] Archiving artifacts [2023-11-23T21:17:47.516Z] Recording fingerprints [Pipeline] archiveArtifacts [2023-11-23T21:17:49.038Z] Archiving artifacts [2023-11-23T21:17:49.054Z] Recording fingerprints [Pipeline] emailextrecipients [Pipeline] step [2023-11-23T21:17:49.225Z] An attempt to send an e-mail to empty list of recipients, ignored. [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // timeout [Pipeline] } [Pipeline] // timestamps [Pipeline] } [Pipeline] // ansiColor [Pipeline] } $ docker stop --time=1 212bd5c339aae52366f6cbb404880abf43aa0f399472ae4f889e9ee0db490eaf $ docker rm -f 212bd5c339aae52366f6cbb404880abf43aa0f399472ae4f889e9ee0db490eaf [Pipeline] // withDockerContainer [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline ERROR: script returned exit code 1 Finished: FAILURE