[BUG] incompatible netcdf4 version?

[rcaneill]

https://github.com/rcaneill/xnemogcm/actions/runs/9759077028/job/26935016107

with pip install netcdf4==1.6.5 tests work but with pip install netcdf4==1.7.0 tests fail with segfault...

[rcaneill]

2024-07-02T10:12:14.7540632Z Current runner version: '2.317.0'
2024-07-02T10:12:14.7566252Z ##[group]Operating System
2024-07-02T10:12:14.7567054Z Ubuntu
2024-07-02T10:12:14.7567362Z 22.04.4
2024-07-02T10:12:14.7567708Z LTS
2024-07-02T10:12:14.7568112Z ##[endgroup]
2024-07-02T10:12:14.7568458Z ##[group]Runner Image
2024-07-02T10:12:14.7568904Z Image: ubuntu-22.04
2024-07-02T10:12:14.7569369Z Version: 20240624.1.0
2024-07-02T10:12:14.7570339Z Included Software: https://github.com/actions/runner-images/blob/ubuntu22/20240624.1/images/ubuntu/Ubuntu2204-Readme.md
2024-07-02T10:12:14.7571766Z Image Release: https://github.com/actions/runner-images/releases/tag/ubuntu22%2F20240624.1
2024-07-02T10:12:14.7572681Z ##[endgroup]
2024-07-02T10:12:14.7573068Z ##[group]Runner Image Provisioner
2024-07-02T10:12:14.7573549Z 2.0.370.1
2024-07-02T10:12:14.7573948Z ##[endgroup]
2024-07-02T10:12:14.7576241Z ##[group]GITHUB_TOKEN Permissions
2024-07-02T10:12:14.7577918Z Actions: write
2024-07-02T10:12:14.7578673Z Attestations: write
2024-07-02T10:12:14.7579283Z Checks: write
2024-07-02T10:12:14.7579628Z Contents: write
2024-07-02T10:12:14.7580013Z Deployments: write
2024-07-02T10:12:14.7580504Z Discussions: write
2024-07-02T10:12:14.7580881Z Issues: write
2024-07-02T10:12:14.7581243Z Metadata: read
2024-07-02T10:12:14.7581694Z Packages: write
2024-07-02T10:12:14.7582033Z Pages: write
2024-07-02T10:12:14.7582407Z PullRequests: write
2024-07-02T10:12:14.7582908Z RepositoryProjects: write
2024-07-02T10:12:14.7583325Z SecurityEvents: write
2024-07-02T10:12:14.7583732Z Statuses: write
2024-07-02T10:12:14.7584190Z ##[endgroup]
2024-07-02T10:12:14.7587655Z Secret source: Actions
2024-07-02T10:12:14.7588287Z Prepare workflow directory
2024-07-02T10:12:14.8235497Z Prepare all required actions
2024-07-02T10:12:14.8401323Z Getting action download info
2024-07-02T10:12:15.0522166Z Download action repository 'actions/checkout@v2' (SHA:ee0669bd1cc54295c223e0bb666b733df41de1c5)
2024-07-02T10:12:15.1760664Z Download action repository 'actions/setup-python@v1' (SHA:0f07f7f756721ebd886c2462646a35f78a8bc4de)
2024-07-02T10:12:15.5970564Z Download action repository 'abatilo/actions-poetry@v2.0.0' (SHA:1f9adef0261964471fcf93ba269e1762a33a8a26)
2024-07-02T10:12:16.1090639Z Complete job name: pytest (ubuntu-latest, 3.9) with upgrade of all packages
2024-07-02T10:12:16.2030088Z ##[group]Run actions/checkout@v2
2024-07-02T10:12:16.2030619Z with:
2024-07-02T10:12:16.2030933Z   repository: rcaneill/xnemogcm
2024-07-02T10:12:16.2031712Z   token: ***
2024-07-02T10:12:16.2032064Z   ssh-strict: true
2024-07-02T10:12:16.2032404Z   persist-credentials: true
2024-07-02T10:12:16.2032907Z   clean: true
2024-07-02T10:12:16.2033225Z   fetch-depth: 1
2024-07-02T10:12:16.2033510Z   lfs: false
2024-07-02T10:12:16.2033904Z   submodules: false
2024-07-02T10:12:16.2034271Z   set-safe-directory: true
2024-07-02T10:12:16.2034612Z ##[endgroup]
2024-07-02T10:12:16.4572843Z Syncing repository: rcaneill/xnemogcm
2024-07-02T10:12:16.4574976Z ##[group]Getting Git version info
2024-07-02T10:12:16.4575801Z Working directory is '/home/runner/work/xnemogcm/xnemogcm'
2024-07-02T10:12:16.4576702Z [command]/usr/bin/git version
2024-07-02T10:12:16.4621761Z git version 2.45.2
2024-07-02T10:12:16.4647906Z ##[endgroup]
2024-07-02T10:12:16.4664391Z Temporarily overriding HOME='/home/runner/work/_temp/1c062eb6-936a-4484-9d7f-2dd94330c867' before making global git config changes
2024-07-02T10:12:16.4665772Z Adding repository directory to the temporary git global config as a safe directory
2024-07-02T10:12:16.4669056Z [command]/usr/bin/git config --global --add safe.directory /home/runner/work/xnemogcm/xnemogcm
2024-07-02T10:12:16.4722286Z Deleting the contents of '/home/runner/work/xnemogcm/xnemogcm'
2024-07-02T10:12:16.4727053Z ##[group]Initializing the repository
2024-07-02T10:12:16.4730578Z [command]/usr/bin/git init /home/runner/work/xnemogcm/xnemogcm
2024-07-02T10:12:16.4821237Z hint: Using 'master' as the name for the initial branch. This default branch name
2024-07-02T10:12:16.4822770Z hint: is subject to change. To configure the initial branch name to use in all
2024-07-02T10:12:16.4824418Z hint: of your new repositories, which will suppress this warning, call:
2024-07-02T10:12:16.4825566Z hint:
2024-07-02T10:12:16.4826389Z hint: 	git config --global init.defaultBranch <name>
2024-07-02T10:12:16.4826981Z hint:
2024-07-02T10:12:16.4827645Z hint: Names commonly chosen instead of 'master' are 'main', 'trunk' and
2024-07-02T10:12:16.4828444Z hint: 'development'. The just-created branch can be renamed via this command:
2024-07-02T10:12:16.4828996Z hint:
2024-07-02T10:12:16.4829381Z hint: 	git branch -m <name>
2024-07-02T10:12:16.4829965Z Initialized empty Git repository in /home/runner/work/xnemogcm/xnemogcm/.git/
2024-07-02T10:12:16.4835687Z [command]/usr/bin/git remote add origin https://github.com/rcaneill/xnemogcm
2024-07-02T10:12:16.4886555Z ##[endgroup]
2024-07-02T10:12:16.4887670Z ##[group]Disabling automatic garbage collection
2024-07-02T10:12:16.4891752Z [command]/usr/bin/git config --local gc.auto 0
2024-07-02T10:12:16.4934172Z ##[endgroup]
2024-07-02T10:12:16.4935488Z ##[group]Setting up auth
2024-07-02T10:12:16.4942736Z [command]/usr/bin/git config --local --name-only --get-regexp core\.sshCommand
2024-07-02T10:12:16.4986420Z [command]/usr/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'core\.sshCommand' && git config --local --unset-all 'core.sshCommand' || :"
2024-07-02T10:12:16.5360912Z [command]/usr/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2024-07-02T10:12:16.5402354Z [command]/usr/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'http\.https\:\/\/github\.com\/\.extraheader' && git config --local --unset-all 'http.https://github.com/.extraheader' || :"
2024-07-02T10:12:16.5664430Z [command]/usr/bin/git config --local http.https://github.com/.extraheader AUTHORIZATION: basic ***
2024-07-02T10:12:16.5716249Z ##[endgroup]
2024-07-02T10:12:16.5717519Z ##[group]Fetching the repository
2024-07-02T10:12:16.5726727Z [command]/usr/bin/git -c protocol.version=2 fetch --no-tags --prune --progress --no-recurse-submodules --depth=1 origin +e4685189cefa668ec79277f8cca79df066962b17:refs/remotes/origin/main
2024-07-02T10:12:16.9206937Z remote: Enumerating objects: 142, done.        
2024-07-02T10:12:16.9208385Z remote: Counting objects:   0% (1/142)        
2024-07-02T10:12:16.9209226Z remote: Counting objects:   1% (2/142)        
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2024-07-02T10:12:16.9210516Z remote: Counting objects:   3% (5/142)        
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2024-07-02T10:12:16.9213109Z remote: Counting objects:   8% (12/142)        
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2024-07-02T10:12:16.9214662Z remote: Counting objects:  11% (16/142)        
2024-07-02T10:12:16.9215110Z remote: Counting objects:  12% (18/142)        
2024-07-02T10:12:16.9215618Z remote: Counting objects:  13% (19/142)        
2024-07-02T10:12:16.9216165Z remote: Counting objects:  14% (20/142)        
2024-07-02T10:12:16.9216623Z remote: Counting objects:  15% (22/142)        
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2024-07-02T10:12:16.9221411Z remote: Counting objects:  24% (35/142)        
2024-07-02T10:12:16.9221867Z remote: Counting objects:  25% (36/142)        
2024-07-02T10:12:16.9222385Z remote: Counting objects:  26% (37/142)        
2024-07-02T10:12:16.9222852Z remote: Counting objects:  27% (39/142)        
2024-07-02T10:12:16.9223304Z remote: Counting objects:  28% (40/142)        
2024-07-02T10:12:16.9223809Z remote: Counting objects:  29% (42/142)        
2024-07-02T10:12:16.9224260Z remote: Counting objects:  30% (43/142)        
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2024-07-02T10:12:16.9226104Z remote: Counting objects:  34% (49/142)        
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2024-07-02T10:12:16.9227059Z remote: Counting objects:  36% (52/142)        
2024-07-02T10:12:16.9227619Z remote: Counting objects:  37% (53/142)        
2024-07-02T10:12:16.9228502Z remote: Counting objects:  38% (54/142)        
2024-07-02T10:12:16.9229307Z remote: Counting objects:  39% (56/142)        
2024-07-02T10:12:16.9230138Z remote: Counting objects:  40% (57/142)        
2024-07-02T10:12:16.9230596Z remote: Counting objects:  41% (59/142)        
2024-07-02T10:12:16.9231060Z remote: Counting objects:  42% (60/142)        
2024-07-02T10:12:16.9231907Z remote: Counting objects:  43% (62/142)        
2024-07-02T10:12:16.9232496Z remote: Counting objects:  44% (63/142)        
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2024-07-02T10:12:16.9233508Z remote: Counting objects:  46% (66/142)        
2024-07-02T10:12:16.9233931Z remote: Counting objects:  47% (67/142)        
2024-07-02T10:12:16.9234384Z remote: Counting objects:  48% (69/142)        
2024-07-02T10:12:16.9234919Z remote: Counting objects:  49% (70/142)        
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2024-07-02T10:12:16.9235806Z remote: Counting objects:  51% (73/142)        
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2024-07-02T10:12:16.9237486Z remote: Counting objects:  54% (77/142)        
2024-07-02T10:12:16.9238029Z remote: Counting objects:  55% (79/142)        
2024-07-02T10:12:16.9238484Z remote: Counting objects:  56% (80/142)        
2024-07-02T10:12:16.9238923Z remote: Counting objects:  57% (81/142)        
2024-07-02T10:12:16.9239446Z remote: Counting objects:  58% (83/142)        
2024-07-02T10:12:16.9239912Z remote: Counting objects:  59% (84/142)        
2024-07-02T10:12:16.9240329Z remote: Counting objects:  60% (86/142)        
2024-07-02T10:12:16.9240856Z remote: Counting objects:  61% (87/142)        
2024-07-02T10:12:16.9241328Z remote: Counting objects:  62% (89/142)        
2024-07-02T10:12:16.9241752Z remote: Counting objects:  63% (90/142)        
2024-07-02T10:12:16.9242449Z remote: Counting objects:  64% (91/142)        
2024-07-02T10:12:16.9242928Z remote: Counting objects:  65% (93/142)        
2024-07-02T10:12:16.9243384Z remote: Counting objects:  66% (94/142)        
2024-07-02T10:12:16.9243860Z remote: Counting objects:  67% (96/142)        
2024-07-02T10:12:16.9244330Z remote: Counting objects:  68% (97/142)        
2024-07-02T10:12:16.9245054Z remote: Counting objects:  69% (98/142)        
2024-07-02T10:12:16.9245579Z remote: Counting objects:  70% (100/142)        
2024-07-02T10:12:16.9246086Z remote: Counting objects:  71% (101/142)        
2024-07-02T10:12:16.9246560Z remote: Counting objects:  72% (103/142)        
2024-07-02T10:12:16.9247053Z remote: Counting objects:  73% (104/142)        
2024-07-02T10:12:16.9247536Z remote: Counting objects:  74% (106/142)        
2024-07-02T10:12:16.9248003Z remote: Counting objects:  75% (107/142)        
2024-07-02T10:12:16.9248762Z remote: Counting objects:  76% (108/142)        
2024-07-02T10:12:16.9249197Z remote: Counting objects:  77% (110/142)        
2024-07-02T10:12:16.9249653Z remote: Counting objects:  78% (111/142)        
2024-07-02T10:12:16.9250209Z remote: Counting objects:  79% (113/142)        
2024-07-02T10:12:16.9250646Z remote: Counting objects:  80% (114/142)        
2024-07-02T10:12:16.9251121Z remote: Counting objects:  81% (116/142)        
2024-07-02T10:12:16.9251645Z remote: Counting objects:  82% (117/142)        
2024-07-02T10:12:16.9252070Z remote: Counting objects:  83% (118/142)        
2024-07-02T10:12:16.9252542Z remote: Counting objects:  84% (120/142)        
2024-07-02T10:12:16.9253066Z remote: Counting objects:  85% (121/142)        
2024-07-02T10:12:16.9253487Z remote: Counting objects:  86% (123/142)        
2024-07-02T10:12:16.9253959Z remote: Counting objects:  87% (124/142)        
2024-07-02T10:12:16.9254473Z remote: Counting objects:  88% (125/142)        
2024-07-02T10:12:16.9254902Z remote: Counting objects:  89% (127/142)        
2024-07-02T10:12:16.9255373Z remote: Counting objects:  90% (128/142)        
2024-07-02T10:12:16.9255889Z remote: Counting objects:  91% (130/142)        
2024-07-02T10:12:16.9256323Z remote: Counting objects:  92% (131/142)        
2024-07-02T10:12:16.9256796Z remote: Counting objects:  93% (133/142)        
2024-07-02T10:12:16.9257316Z remote: Counting objects:  94% (134/142)        
2024-07-02T10:12:16.9257737Z remote: Counting objects:  95% (135/142)        
2024-07-02T10:12:16.9258212Z remote: Counting objects:  96% (137/142)        
2024-07-02T10:12:16.9258755Z remote: Counting objects:  97% (138/142)        
2024-07-02T10:12:16.9259230Z remote: Counting objects:  98% (140/142)        
2024-07-02T10:12:16.9259647Z remote: Counting objects:  99% (141/142)        
2024-07-02T10:12:16.9260163Z remote: Counting objects: 100% (142/142)        
2024-07-02T10:12:16.9260670Z remote: Counting objects: 100% (142/142), done.        
2024-07-02T10:12:16.9261161Z remote: Compressing objects:   1% (1/78)        
2024-07-02T10:12:16.9261714Z remote: Compressing objects:   2% (2/78)        
2024-07-02T10:12:16.9262211Z remote: Compressing objects:   3% (3/78)        
2024-07-02T10:12:16.9262801Z remote: Compressing objects:   5% (4/78)        
2024-07-02T10:12:16.9263391Z remote: Compressing objects:   6% (5/78)        
2024-07-02T10:12:16.9263873Z remote: Compressing objects:   7% (6/78)        
2024-07-02T10:12:16.9264308Z remote: Compressing objects:   8% (7/78)        
2024-07-02T10:12:16.9264869Z remote: Compressing objects:  10% (8/78)        
2024-07-02T10:12:16.9265341Z remote: Compressing objects:  11% (9/78)        
2024-07-02T10:12:16.9265783Z remote: Compressing objects:  12% (10/78)        
2024-07-02T10:12:16.9266355Z remote: Compressing objects:  14% (11/78)        
2024-07-02T10:12:16.9266843Z remote: Compressing objects:  15% (12/78)        
2024-07-02T10:12:16.9267292Z remote: Compressing objects:  16% (13/78)        
2024-07-02T10:12:16.9267875Z remote: Compressing objects:  17% (14/78)        
2024-07-02T10:12:16.9268370Z remote: Compressing objects:  19% (15/78)        
2024-07-02T10:12:16.9268863Z remote: Compressing objects:  20% (16/78)        
2024-07-02T10:12:16.9269372Z remote: Compressing objects:  21% (17/78)        
2024-07-02T10:12:16.9269852Z remote: Compressing objects:  23% (18/78)        
2024-07-02T10:12:16.9270341Z remote: Compressing objects:  24% (19/78)        
2024-07-02T10:12:16.9287374Z remote: Compressing objects:  25% (20/78)        
2024-07-02T10:12:16.9288240Z remote: Compressing objects:  26% (21/78)        
2024-07-02T10:12:16.9289265Z remote: Compressing objects:  28% (22/78)        
2024-07-02T10:12:16.9289835Z remote: Compressing objects:  29% (23/78)        
2024-07-02T10:12:16.9290437Z remote: Compressing objects:  30% (24/78)        
2024-07-02T10:12:16.9291142Z remote: Compressing objects:  32% (25/78)        
2024-07-02T10:12:16.9291691Z remote: Compressing objects:  33% (26/78)        
2024-07-02T10:12:16.9292304Z remote: Compressing objects:  34% (27/78)        
2024-07-02T10:12:16.9293315Z remote: Compressing objects:  35% (28/78)        
2024-07-02T10:12:16.9294112Z remote: Compressing objects:  37% (29/78)        
2024-07-02T10:12:16.9295124Z remote: Compressing objects:  38% (30/78)        
2024-07-02T10:12:16.9296311Z remote: Compressing objects:  39% (31/78)        
2024-07-02T10:12:16.9297292Z remote: Compressing objects:  41% (32/78)        
2024-07-02T10:12:16.9298039Z remote: Compressing objects:  42% (33/78)        
2024-07-02T10:12:16.9298705Z remote: Compressing objects:  43% (34/78)        
2024-07-02T10:12:16.9299207Z remote: Compressing objects:  44% (35/78)        
2024-07-02T10:12:16.9299642Z remote: Compressing objects:  46% (36/78)        
2024-07-02T10:12:16.9300199Z remote: Compressing objects:  47% (37/78)        
2024-07-02T10:12:16.9300688Z remote: Compressing objects:  48% (38/78)        
2024-07-02T10:12:16.9301230Z remote: Compressing objects:  50% (39/78)        
2024-07-02T10:12:16.9301815Z remote: Compressing objects:  51% (40/78)        
2024-07-02T10:12:16.9302321Z remote: Compressing objects:  52% (41/78)        
2024-07-02T10:12:16.9302755Z remote: Compressing objects:  53% (42/78)        
2024-07-02T10:12:16.9303299Z remote: Compressing objects:  55% (43/78)        
2024-07-02T10:12:16.9303794Z remote: Compressing objects:  56% (44/78)        
2024-07-02T10:12:16.9304231Z remote: Compressing objects:  57% (45/78)        
2024-07-02T10:12:16.9304778Z remote: Compressing objects:  58% (46/78)        
2024-07-02T10:12:16.9305265Z remote: Compressing objects:  60% (47/78)        
2024-07-02T10:12:16.9305742Z remote: Compressing objects:  61% (48/78)        
2024-07-02T10:12:16.9306266Z remote: Compressing objects:  62% (49/78)        
2024-07-02T10:12:16.9306736Z remote: Compressing objects:  64% (50/78)        
2024-07-02T10:12:16.9307203Z remote: Compressing objects:  65% (51/78)        
2024-07-02T10:12:16.9307713Z remote: Compressing objects:  66% (52/78)        
2024-07-02T10:12:16.9308191Z remote: Compressing objects:  67% (53/78)        
2024-07-02T10:12:16.9308658Z remote: Compressing objects:  69% (54/78)        
2024-07-02T10:12:16.9309171Z remote: Compressing objects:  70% (55/78)        
2024-07-02T10:12:16.9309831Z remote: Compressing objects:  71% (56/78)        
2024-07-02T10:12:16.9310333Z remote: Compressing objects:  73% (57/78)        
2024-07-02T10:12:16.9310838Z remote: Compressing objects:  74% (58/78)        
2024-07-02T10:12:16.9311307Z remote: Compressing objects:  75% (59/78)        
2024-07-02T10:12:16.9311802Z remote: Compressing objects:  76% (60/78)        
2024-07-02T10:12:16.9312332Z remote: Compressing objects:  78% (61/78)        
2024-07-02T10:12:16.9312762Z remote: Compressing objects:  79% (62/78)        
2024-07-02T10:12:16.9313248Z remote: Compressing objects:  80% (63/78)        
2024-07-02T10:12:16.9313781Z remote: Compressing objects:  82% (64/78)        
2024-07-02T10:12:16.9314216Z remote: Compressing objects:  83% (65/78)        
2024-07-02T10:12:16.9314704Z remote: Compressing objects:  84% (66/78)        
2024-07-02T10:12:16.9315233Z remote: Compressing objects:  85% (67/78)        
2024-07-02T10:12:16.9315662Z remote: Compressing objects:  87% (68/78)        
2024-07-02T10:12:16.9316151Z remote: Compressing objects:  88% (69/78)        
2024-07-02T10:12:16.9316674Z remote: Compressing objects:  89% (70/78)        
2024-07-02T10:12:16.9317122Z remote: Compressing objects:  91% (71/78)        
2024-07-02T10:12:16.9317597Z remote: Compressing objects:  92% (72/78)        
2024-07-02T10:12:16.9318125Z remote: Compressing objects:  93% (73/78)        
2024-07-02T10:12:16.9318572Z remote: Compressing objects:  94% (74/78)        
2024-07-02T10:12:16.9319037Z remote: Compressing objects:  96% (75/78)        
2024-07-02T10:12:16.9319563Z remote: Compressing objects:  97% (76/78)        
2024-07-02T10:12:16.9320008Z remote: Compressing objects:  98% (77/78)        
2024-07-02T10:12:16.9320477Z remote: Compressing objects: 100% (78/78)        
2024-07-02T10:12:16.9321215Z remote: Compressing objects: 100% (78/78), done.        
2024-07-02T10:12:16.9447201Z Receiving objects:   0% (1/142)
2024-07-02T10:12:16.9448356Z Receiving objects:   1% (2/142)
2024-07-02T10:12:16.9449108Z Receiving objects:   2% (3/142)
2024-07-02T10:12:16.9449858Z Receiving objects:   3% (5/142)
2024-07-02T10:12:16.9450782Z Receiving objects:   4% (6/142)
2024-07-02T10:12:16.9451563Z Receiving objects:   5% (8/142)
2024-07-02T10:12:16.9452202Z Receiving objects:   6% (9/142)
2024-07-02T10:12:16.9453001Z Receiving objects:   7% (10/142)
2024-07-02T10:12:16.9453713Z Receiving objects:   8% (12/142)
2024-07-02T10:12:16.9454281Z Receiving objects:   9% (13/142)
2024-07-02T10:12:16.9455097Z Receiving objects:  10% (15/142)
2024-07-02T10:12:16.9455809Z Receiving objects:  11% (16/142)
2024-07-02T10:12:16.9456525Z Receiving objects:  12% (18/142)
2024-07-02T10:12:16.9457181Z Receiving objects:  13% (19/142)
2024-07-02T10:12:16.9457576Z Receiving objects:  14% (20/142)
2024-07-02T10:12:16.9457997Z Receiving objects:  15% (22/142)
2024-07-02T10:12:16.9458516Z Receiving objects:  16% (23/142)
2024-07-02T10:12:16.9458883Z Receiving objects:  17% (25/142)
2024-07-02T10:12:16.9459289Z Receiving objects:  18% (26/142)
2024-07-02T10:12:16.9459801Z Receiving objects:  19% (27/142)
2024-07-02T10:12:16.9460166Z Receiving objects:  20% (29/142)
2024-07-02T10:12:16.9460555Z Receiving objects:  21% (30/142)
2024-07-02T10:12:16.9461034Z Receiving objects:  22% (32/142)
2024-07-02T10:12:16.9461386Z Receiving objects:  23% (33/142)
2024-07-02T10:12:16.9461840Z Receiving objects:  24% (35/142)
2024-07-02T10:12:16.9462301Z Receiving objects:  25% (36/142)
2024-07-02T10:12:16.9462651Z Receiving objects:  26% (37/142)
2024-07-02T10:12:16.9463054Z Receiving objects:  27% (39/142)
2024-07-02T10:12:16.9463515Z Receiving objects:  28% (40/142)
2024-07-02T10:12:16.9463861Z Receiving objects:  29% (42/142)
2024-07-02T10:12:16.9477404Z Receiving objects:  30% (43/142)
2024-07-02T10:12:16.9478278Z Receiving objects:  31% (45/142)
2024-07-02T10:12:16.9478924Z Receiving objects:  32% (46/142)
2024-07-02T10:12:16.9479514Z Receiving objects:  33% (47/142)
2024-07-02T10:12:16.9561404Z Receiving objects:  34% (49/142)
2024-07-02T10:12:16.9747078Z Receiving objects:  35% (50/142)
2024-07-02T10:12:16.9748351Z Receiving objects:  36% (52/142)
2024-07-02T10:12:16.9749235Z Receiving objects:  37% (53/142)
2024-07-02T10:12:16.9750053Z Receiving objects:  38% (54/142)
2024-07-02T10:12:16.9750747Z Receiving objects:  39% (56/142)
2024-07-02T10:12:16.9751411Z Receiving objects:  40% (57/142)
2024-07-02T10:12:16.9752128Z Receiving objects:  41% (59/142)
2024-07-02T10:12:16.9752743Z Receiving objects:  42% (60/142)
2024-07-02T10:12:16.9753390Z Receiving objects:  43% (62/142)
2024-07-02T10:12:16.9754103Z Receiving objects:  44% (63/142)
2024-07-02T10:12:16.9754728Z Receiving objects:  45% (64/142)
2024-07-02T10:12:16.9755344Z Receiving objects:  46% (66/142)
2024-07-02T10:12:16.9756057Z Receiving objects:  47% (67/142)
2024-07-02T10:12:16.9759844Z Receiving objects:  48% (69/142)
2024-07-02T10:12:16.9761314Z Receiving objects:  49% (70/142)
2024-07-02T10:12:16.9843352Z Receiving objects:  50% (71/142)
2024-07-02T10:12:16.9844117Z Receiving objects:  51% (73/142)
2024-07-02T10:12:16.9849563Z Receiving objects:  52% (74/142)
2024-07-02T10:12:16.9850257Z Receiving objects:  53% (76/142)
2024-07-02T10:12:16.9850688Z Receiving objects:  54% (77/142)
2024-07-02T10:12:16.9851193Z Receiving objects:  55% (79/142)
2024-07-02T10:12:16.9851628Z Receiving objects:  56% (80/142)
2024-07-02T10:12:16.9930024Z Receiving objects:  57% (81/142)
2024-07-02T10:12:16.9931066Z Receiving objects:  58% (83/142)
2024-07-02T10:12:16.9931899Z Receiving objects:  59% (84/142)
2024-07-02T10:12:16.9932560Z Receiving objects:  60% (86/142)
2024-07-02T10:12:16.9933809Z Receiving objects:  61% (87/142)
2024-07-02T10:12:16.9937345Z Receiving objects:  62% (89/142)
2024-07-02T10:12:16.9937988Z Receiving objects:  63% (90/142)
2024-07-02T10:12:16.9940275Z Receiving objects:  64% (91/142)
2024-07-02T10:12:16.9941319Z Receiving objects:  65% (93/142)
2024-07-02T10:12:16.9941961Z Receiving objects:  66% (94/142)
2024-07-02T10:12:16.9942681Z Receiving objects:  67% (96/142)
2024-07-02T10:12:16.9943305Z Receiving objects:  68% (97/142)
2024-07-02T10:12:16.9954607Z Receiving objects:  69% (98/142)
2024-07-02T10:12:16.9955590Z Receiving objects:  70% (100/142)
2024-07-02T10:12:16.9956992Z Receiving objects:  71% (101/142)
2024-07-02T10:12:16.9957632Z Receiving objects:  72% (103/142)
2024-07-02T10:12:16.9962244Z Receiving objects:  73% (104/142)
2024-07-02T10:12:16.9962958Z Receiving objects:  74% (106/142)
2024-07-02T10:12:16.9963595Z Receiving objects:  75% (107/142)
2024-07-02T10:12:16.9964405Z Receiving objects:  76% (108/142)
2024-07-02T10:12:16.9965337Z Receiving objects:  77% (110/142)
2024-07-02T10:12:16.9965988Z Receiving objects:  78% (111/142)
2024-07-02T10:12:16.9966807Z Receiving objects:  79% (113/142)
2024-07-02T10:12:16.9967466Z Receiving objects:  80% (114/142)
2024-07-02T10:12:16.9968087Z Receiving objects:  81% (116/142)
2024-07-02T10:12:16.9968827Z Receiving objects:  82% (117/142)
2024-07-02T10:12:16.9969455Z Receiving objects:  83% (118/142)
2024-07-02T10:12:16.9970051Z Receiving objects:  84% (120/142)
2024-07-02T10:12:16.9974871Z Receiving objects:  85% (121/142)
2024-07-02T10:12:16.9975595Z Receiving objects:  86% (123/142)
2024-07-02T10:12:16.9976294Z Receiving objects:  87% (124/142)
2024-07-02T10:12:16.9977032Z Receiving objects:  88% (125/142)
2024-07-02T10:12:16.9977696Z Receiving objects:  89% (127/142)
2024-07-02T10:12:16.9978370Z Receiving objects:  90% (128/142)
2024-07-02T10:12:16.9979089Z Receiving objects:  91% (130/142)
2024-07-02T10:12:16.9979764Z Receiving objects:  92% (131/142)
2024-07-02T10:12:16.9992767Z Receiving objects:  93% (133/142)
2024-07-02T10:12:16.9993517Z Receiving objects:  94% (134/142)
2024-07-02T10:12:16.9993951Z Receiving objects:  95% (135/142)
2024-07-02T10:12:17.0015852Z Receiving objects:  96% (137/142)
2024-07-02T10:12:17.0017214Z remote: Total 142 (delta 57), reused 110 (delta 53), pack-reused 0        
2024-07-02T10:12:17.0018319Z Receiving objects:  97% (138/142)
2024-07-02T10:12:17.0019033Z Receiving objects:  98% (140/142)
2024-07-02T10:12:17.0019916Z Receiving objects:  99% (141/142)
2024-07-02T10:12:17.0020851Z Receiving objects: 100% (142/142)
2024-07-02T10:12:17.0021660Z Receiving objects: 100% (142/142), 314.70 KiB | 5.08 MiB/s, done.
2024-07-02T10:12:17.0027382Z Resolving deltas:   0% (0/57)
2024-07-02T10:12:17.0028001Z Resolving deltas:   1% (1/57)
2024-07-02T10:12:17.0028603Z Resolving deltas:   3% (2/57)
2024-07-02T10:12:17.0029357Z Resolving deltas:   5% (3/57)
2024-07-02T10:12:17.0039777Z Resolving deltas:   7% (4/57)
2024-07-02T10:12:17.0040404Z Resolving deltas:   8% (5/57)
2024-07-02T10:12:17.0041164Z Resolving deltas:  10% (6/57)
2024-07-02T10:12:17.0043503Z Resolving deltas:  12% (7/57)
2024-07-02T10:12:17.0044333Z Resolving deltas:  14% (8/57)
2024-07-02T10:12:17.0048848Z Resolving deltas:  15% (9/57)
2024-07-02T10:12:17.0052183Z Resolving deltas:  17% (10/57)
2024-07-02T10:12:17.0053964Z Resolving deltas:  19% (11/57)
2024-07-02T10:12:17.0056412Z Resolving deltas:  21% (12/57)
2024-07-02T10:12:17.0057220Z Resolving deltas:  22% (13/57)
2024-07-02T10:12:17.0059128Z Resolving deltas:  24% (14/57)
2024-07-02T10:12:17.0062080Z Resolving deltas:  26% (15/57)
2024-07-02T10:12:17.0080749Z Resolving deltas:  28% (16/57)
2024-07-02T10:12:17.0084097Z Resolving deltas:  31% (18/57)
2024-07-02T10:12:17.0084915Z Resolving deltas:  33% (19/57)
2024-07-02T10:12:17.0085592Z Resolving deltas:  35% (20/57)
2024-07-02T10:12:17.0086319Z Resolving deltas:  36% (21/57)
2024-07-02T10:12:17.0086945Z Resolving deltas:  38% (22/57)
2024-07-02T10:12:17.0087592Z Resolving deltas:  40% (23/57)
2024-07-02T10:12:17.0088301Z Resolving deltas:  42% (24/57)
2024-07-02T10:12:17.0094098Z Resolving deltas:  47% (27/57)
2024-07-02T10:12:17.0094816Z Resolving deltas:  49% (28/57)
2024-07-02T10:12:17.0095681Z Resolving deltas:  50% (29/57)
2024-07-02T10:12:17.0107889Z Resolving deltas:  54% (31/57)
2024-07-02T10:12:17.0108950Z Resolving deltas:  56% (32/57)
2024-07-02T10:12:17.0112391Z Resolving deltas:  57% (33/57)
2024-07-02T10:12:17.0113131Z Resolving deltas:  59% (34/57)
2024-07-02T10:12:17.0113753Z Resolving deltas:  61% (35/57)
2024-07-02T10:12:17.0114528Z Resolving deltas:  63% (36/57)
2024-07-02T10:12:17.0124684Z Resolving deltas:  64% (37/57)
2024-07-02T10:12:17.0125620Z Resolving deltas:  66% (38/57)
2024-07-02T10:12:17.0126537Z Resolving deltas:  68% (39/57)
2024-07-02T10:12:17.0127168Z Resolving deltas:  70% (40/57)
2024-07-02T10:12:17.0127752Z Resolving deltas:  71% (41/57)
2024-07-02T10:12:17.0128467Z Resolving deltas:  73% (42/57)
2024-07-02T10:12:17.0129089Z Resolving deltas:  75% (43/57)
2024-07-02T10:12:17.0129665Z Resolving deltas:  77% (44/57)
2024-07-02T10:12:17.0130357Z Resolving deltas:  78% (45/57)
2024-07-02T10:12:17.0132266Z Resolving deltas:  80% (46/57)
2024-07-02T10:12:17.0132944Z Resolving deltas:  82% (47/57)
2024-07-02T10:12:17.0133682Z Resolving deltas:  84% (48/57)
2024-07-02T10:12:17.0134316Z Resolving deltas:  85% (49/57)
2024-07-02T10:12:17.0134897Z Resolving deltas:  87% (50/57)
2024-07-02T10:12:17.0135629Z Resolving deltas:  89% (51/57)
2024-07-02T10:12:17.0136252Z Resolving deltas:  91% (52/57)
2024-07-02T10:12:17.0136861Z Resolving deltas:  92% (53/57)
2024-07-02T10:12:17.0137731Z Resolving deltas:  94% (54/57)
2024-07-02T10:12:17.0138485Z Resolving deltas:  96% (55/57)
2024-07-02T10:12:17.0139121Z Resolving deltas:  98% (56/57)
2024-07-02T10:12:17.0139666Z Resolving deltas: 100% (57/57)
2024-07-02T10:12:17.0140095Z Resolving deltas: 100% (57/57), done.
2024-07-02T10:12:17.0214082Z From https://github.com/rcaneill/xnemogcm
2024-07-02T10:12:17.0215339Z  * [new ref]         e4685189cefa668ec79277f8cca79df066962b17 -> origin/main
2024-07-02T10:12:17.0240731Z ##[endgroup]
2024-07-02T10:12:17.0242420Z ##[group]Determining the checkout info
2024-07-02T10:12:17.0243576Z ##[endgroup]
2024-07-02T10:12:17.0244630Z ##[group]Checking out the ref
2024-07-02T10:12:17.0248756Z [command]/usr/bin/git checkout --progress --force -B main refs/remotes/origin/main
2024-07-02T10:12:17.0480180Z Switched to a new branch 'main'
2024-07-02T10:12:17.0481583Z branch 'main' set up to track 'origin/main'.
2024-07-02T10:12:17.0490603Z ##[endgroup]
2024-07-02T10:12:17.0543447Z [command]/usr/bin/git log -1 --format='%H'
2024-07-02T10:12:17.0581676Z 'e4685189cefa668ec79277f8cca79df066962b17'
2024-07-02T10:12:17.0968243Z ##[group]Run actions/setup-python@v1
2024-07-02T10:12:17.0968722Z with:
2024-07-02T10:12:17.0969068Z   python-version: 3.9
2024-07-02T10:12:17.0969515Z   architecture: x64
2024-07-02T10:12:17.0969821Z ##[endgroup]
2024-07-02T10:12:17.1556247Z Successfully setup CPython (3.9.19)
2024-07-02T10:12:17.1670932Z ##[group]Run abatilo/actions-poetry@v2.0.0
2024-07-02T10:12:17.1671397Z with:
2024-07-02T10:12:17.1671728Z   poetry-version: 1.3.2
2024-07-02T10:12:17.1672186Z env:
2024-07-02T10:12:17.1672552Z   pythonLocation: /opt/hostedtoolcache/Python/3.9.19/x64
2024-07-02T10:12:17.1673079Z ##[endgroup]
2024-07-02T10:12:17.1945664Z ##[group]Run pip install poetry==1.3.2
2024-07-02T10:12:17.1946265Z �[36;1mpip install poetry==1.3.2�[0m
2024-07-02T10:12:17.2074040Z shell: /usr/bin/bash --noprofile --norc -e -o pipefail {0}
2024-07-02T10:12:17.2074663Z env:
2024-07-02T10:12:17.2075290Z   pythonLocation: /opt/hostedtoolcache/Python/3.9.19/x64
2024-07-02T10:12:17.2075760Z ##[endgroup]
2024-07-02T10:12:18.0623893Z Collecting poetry==1.3.2
2024-07-02T10:12:18.0803047Z   Downloading poetry-1.3.2-py3-none-any.whl.metadata (7.1 kB)
2024-07-02T10:12:18.1140411Z Collecting cachecontrol<0.13.0,>=0.12.9 (from cachecontrol[filecache]<0.13.0,>=0.12.9->poetry==1.3.2)
2024-07-02T10:12:18.1182579Z   Downloading CacheControl-0.12.14-py2.py3-none-any.whl.metadata (2.2 kB)
2024-07-02T10:12:18.1507302Z Collecting cleo<3.0.0,>=2.0.0 (from poetry==1.3.2)
2024-07-02T10:12:18.1543628Z   Downloading cleo-2.1.0-py3-none-any.whl.metadata (12 kB)
2024-07-02T10:12:18.1740970Z Collecting crashtest<0.5.0,>=0.4.1 (from poetry==1.3.2)
2024-07-02T10:12:18.1776577Z   Downloading crashtest-0.4.1-py3-none-any.whl.metadata (1.1 kB)
2024-07-02T10:12:18.3229568Z Collecting dulwich<0.21.0,>=0.20.46 (from poetry==1.3.2)
2024-07-02T10:12:18.3279642Z   Downloading dulwich-0.20.50-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.2 kB)
2024-07-02T10:12:18.3659115Z Collecting filelock<4.0.0,>=3.8.0 (from poetry==1.3.2)
2024-07-02T10:12:18.3699465Z   Downloading filelock-3.15.4-py3-none-any.whl.metadata (2.9 kB)
2024-07-02T10:12:18.3935799Z Collecting html5lib<2.0,>=1.0 (from poetry==1.3.2)
2024-07-02T10:12:18.3976015Z   Downloading html5lib-1.1-py2.py3-none-any.whl.metadata (16 kB)
2024-07-02T10:12:18.4696941Z Collecting importlib-metadata<5.0,>=4.4 (from poetry==1.3.2)
2024-07-02T10:12:18.4733326Z   Downloading importlib_metadata-4.13.0-py3-none-any.whl.metadata (4.9 kB)
2024-07-02T10:12:18.5258350Z Collecting jsonschema<5.0.0,>=4.10.0 (from poetry==1.3.2)
2024-07-02T10:12:18.5298893Z   Downloading jsonschema-4.22.0-py3-none-any.whl.metadata (8.2 kB)
2024-07-02T10:12:18.5987114Z Collecting keyring<24.0.0,>=23.9.0 (from poetry==1.3.2)
2024-07-02T10:12:18.6026032Z   Downloading keyring-23.13.1-py3-none-any.whl.metadata (20 kB)
2024-07-02T10:12:18.6232972Z Collecting lockfile<0.13.0,>=0.12.2 (from poetry==1.3.2)
2024-07-02T10:12:18.6271082Z   Downloading lockfile-0.12.2-py2.py3-none-any.whl.metadata (2.4 kB)
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2024-07-02T10:12:22.6841921Z Installing collected packages: webencodings, trove-classifiers, ptyprocess, lockfile, distlib, zipp, urllib3, tomlkit, tomli, six, shellingham, rpds-py, rapidfuzz, pycparser, poetry-core, platformdirs, pkginfo, pexpect, packaging, msgpack, more-itertools, jeepney, idna, filelock, crashtest, charset-normalizer, certifi, attrs, virtualenv, requests, referencing, jaraco.classes, importlib-metadata, html5lib, dulwich, cleo, cffi, requests-toolbelt, jsonschema-specifications, cryptography, cachecontrol, SecretStorage, jsonschema, keyring, poetry-plugin-export, poetry
2024-07-02T10:12:25.3555297Z Successfully installed SecretStorage-3.3.3 attrs-23.2.0 cachecontrol-0.12.14 certifi-2024.6.2 cffi-1.16.0 charset-normalizer-3.3.2 cleo-2.1.0 crashtest-0.4.1 cryptography-42.0.8 distlib-0.3.8 dulwich-0.20.50 filelock-3.15.4 html5lib-1.1 idna-3.7 importlib-metadata-4.13.0 jaraco.classes-3.4.0 jeepney-0.8.0 jsonschema-4.22.0 jsonschema-specifications-2023.12.1 keyring-23.13.1 lockfile-0.12.2 more-itertools-10.3.0 msgpack-1.0.8 packaging-24.1 pexpect-4.9.0 pkginfo-1.11.1 platformdirs-2.6.2 poetry-1.3.2 poetry-core-1.4.0 poetry-plugin-export-1.3.1 ptyprocess-0.7.0 pycparser-2.22 rapidfuzz-3.9.3 referencing-0.35.1 requests-2.32.3 requests-toolbelt-0.10.1 rpds-py-0.18.1 shellingham-1.5.4 six-1.16.0 tomli-2.0.1 tomlkit-0.12.5 trove-classifiers-2024.7.1 urllib3-1.26.19 virtualenv-20.21.1 webencodings-0.5.1 zipp-3.19.2
2024-07-02T10:12:25.4225920Z 
2024-07-02T10:12:25.4227110Z [notice] A new release of pip is available: 24.1 -> 24.1.1
2024-07-02T10:12:25.4228285Z [notice] To update, run: pip install --upgrade pip
2024-07-02T10:12:25.9814625Z ##[group]Run poetry update
2024-07-02T10:12:25.9815043Z �[36;1mpoetry update�[0m
2024-07-02T10:12:25.9815527Z �[36;1mpoetry install --with test�[0m
2024-07-02T10:12:25.9879405Z shell: /usr/bin/bash -e {0}
2024-07-02T10:12:25.9880067Z env:
2024-07-02T10:12:25.9880511Z   pythonLocation: /opt/hostedtoolcache/Python/3.9.19/x64
2024-07-02T10:12:25.9880981Z ##[endgroup]
2024-07-02T10:12:26.6383769Z Creating virtualenv xnemogcm-8p4nxG08-py3.9 in /home/runner/.cache/pypoetry/virtualenvs
2024-07-02T10:12:27.3529322Z Updating dependencies
2024-07-02T10:12:27.3986041Z Resolving dependencies...
2024-07-02T10:12:49.2360668Z 
2024-07-02T10:12:49.2361564Z Writing lock file
2024-07-02T10:12:49.4875341Z 
2024-07-02T10:12:49.4876865Z Package operations: 21 installs, 0 updates, 0 removals
2024-07-02T10:12:49.4877410Z 
2024-07-02T10:12:49.4885094Z   • Installing six (1.16.0)
2024-07-02T10:12:50.7502678Z   • Installing locket (1.0.0)
2024-07-02T10:12:50.7518503Z   • Installing numpy (2.0.0)
2024-07-02T10:12:50.7532520Z   • Installing python-dateutil (2.9.0.post0)
2024-07-02T10:12:50.7548700Z   • Installing pytz (2024.1)
2024-07-02T10:12:50.7566565Z   • Installing toolz (0.12.1)
2024-07-02T10:12:50.7578395Z   • Installing tzdata (2024.1)
2024-07-02T10:12:50.7609007Z   • Installing zipp (3.19.2)
2024-07-02T10:12:54.7030778Z   • Installing click (8.1.7)
2024-07-02T10:12:54.7043836Z   • Installing cloudpickle (3.0.0)
2024-07-02T10:12:54.7055201Z   • Installing fsspec (2024.6.1)
2024-07-02T10:12:54.7064985Z   • Installing importlib-metadata (8.0.0)
2024-07-02T10:12:54.7075123Z   • Installing packaging (24.1)
2024-07-02T10:12:54.7085277Z   • Installing pandas (2.2.2)
2024-07-02T10:12:54.7095229Z   • Installing partd (1.4.2)
2024-07-02T10:12:54.7138582Z   • Installing pyyaml (6.0.1)
2024-07-02T10:13:00.8291621Z   • Installing certifi (2024.6.2)
2024-07-02T10:13:00.8307698Z   • Installing cftime (1.6.4)
2024-07-02T10:13:00.8319338Z   • Installing dask (2024.6.2)
2024-07-02T10:13:00.8330094Z   • Installing xarray (2024.6.0)
2024-07-02T10:13:02.7854743Z   • Installing netcdf4 (1.7.1.post1)
2024-07-02T10:13:04.7197000Z Installing dependencies from lock file
2024-07-02T10:13:05.3004439Z 
2024-07-02T10:13:05.3006039Z Package operations: 9 installs, 0 updates, 0 removals
2024-07-02T10:13:05.3006906Z 
2024-07-02T10:13:05.3016733Z   • Installing exceptiongroup (1.2.1)
2024-07-02T10:13:05.3024043Z   • Installing future (1.0.0)
2024-07-02T10:13:05.3029461Z   • Installing iniconfig (2.0.0)
2024-07-02T10:13:05.3031710Z   • Installing pluggy (1.5.0)
2024-07-02T10:13:05.3037321Z   • Installing tomli (2.0.1)
2024-07-02T10:13:06.8158965Z   • Installing f90nml (1.4.4)
2024-07-02T10:13:06.8179906Z   • Installing pytest (8.2.2)
2024-07-02T10:13:06.8190652Z   • Installing toml (0.10.2)
2024-07-02T10:13:06.8202367Z   • Installing xgcm (0.8.1)
2024-07-02T10:13:07.8096004Z 
2024-07-02T10:13:07.8097203Z Installing the current project: xnemogcm (0.4.3)
2024-07-02T10:13:07.8915216Z ##[group]Run poetry run pytest xnemogcm/test
2024-07-02T10:13:07.8915797Z �[36;1mpoetry run pytest xnemogcm/test�[0m
2024-07-02T10:13:07.8978132Z shell: /usr/bin/bash -e {0}
2024-07-02T10:13:07.8978539Z env:
2024-07-02T10:13:07.8979049Z   pythonLocation: /opt/hostedtoolcache/Python/3.9.19/x64
2024-07-02T10:13:07.8979515Z ##[endgroup]
2024-07-02T10:13:09.0741355Z ============================= test session starts ==============================
2024-07-02T10:13:09.0743082Z platform linux -- Python 3.9.19, pytest-8.2.2, pluggy-1.5.0
2024-07-02T10:13:09.0744110Z rootdir: /home/runner/work/xnemogcm/xnemogcm
2024-07-02T10:13:09.0744942Z configfile: pyproject.toml
2024-07-02T10:13:09.0745735Z collected 128 items
2024-07-02T10:13:09.0746115Z 
2024-07-02T10:13:10.5290501Z Fatal Python error: Segmentation fault
2024-07-02T10:13:10.5291123Z 
2024-07-02T10:13:10.5291477Z Thread 0x00007f10e5dbd640 (most recent call first):
2024-07-02T10:13:10.5293559Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 81 in _worker
2024-07-02T10:13:10.5295477Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 917 in run
2024-07-02T10:13:10.5297160Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 980 in _bootstrap_inner
2024-07-02T10:13:10.5299004Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 937 in _bootstrap
2024-07-02T10:13:10.5299994Z 
2024-07-02T10:13:10.5300313Z Thread 0x00007f10e6dbe640 (most recent call first):
2024-07-02T10:13:10.5301772Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 81 in _worker
2024-07-02T10:13:10.5303643Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 917 in run
2024-07-02T10:13:10.5305365Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 980 in _bootstrap_inner
2024-07-02T10:13:10.5307267Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 937 in _bootstrap
2024-07-02T10:13:10.5308215Z 
2024-07-02T10:13:10.5308583Z Thread 0x00007f10e7dbf640 (most recent call first):
2024-07-02T10:13:10.5310930Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 217 in _acquire_with_cache_info
2024-07-02T10:13:10.5314147Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 199 in acquire_context
2024-07-02T10:13:10.5316370Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/contextlib.py", line 119 in __enter__
2024-07-02T10:13:10.5318745Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 411 in _acquire
2024-07-02T10:13:10.5321902Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 417 in ds
2024-07-02T10:13:10.5323948Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 355 in __init__
2024-07-02T10:13:10.5325990Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 408 in open
2024-07-02T10:13:10.5327633Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 645 in open_dataset
2024-07-02T10:13:10.5329230Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/api.py", line 571 in open_dataset
2024-07-02T10:13:10.5330821Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/utils.py", line 78 in apply
2024-07-02T10:13:10.5332548Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/core.py", line 127 in _execute_task
2024-07-02T10:13:10.5334119Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 225 in execute_task
2024-07-02T10:13:10.5335643Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 239 in <listcomp>
2024-07-02T10:13:10.5337173Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 239 in batch_execute_tasks
2024-07-02T10:13:10.5338491Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 58 in run
2024-07-02T10:13:10.5339665Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 83 in _worker
2024-07-02T10:13:10.5340648Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 917 in run
2024-07-02T10:13:10.5341642Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 980 in _bootstrap_inner
2024-07-02T10:13:10.5342718Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 937 in _bootstrap
2024-07-02T10:13:10.5343238Z 
2024-07-02T10:13:10.5343478Z Current thread 0x00007f10ed06e640 (most recent call first):
2024-07-02T10:13:10.5344767Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 217 in _acquire_with_cache_info
2024-07-02T10:13:10.5346594Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/file_manager.py", line 199 in acquire_context
2024-07-02T10:13:10.5347885Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/contextlib.py", line 119 in __enter__
2024-07-02T10:13:10.5349205Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 411 in _acquire
2024-07-02T10:13:10.5350839Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 417 in ds
2024-07-02T10:13:10.5352419Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 355 in __init__
2024-07-02T10:13:10.5354001Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 408 in open
2024-07-02T10:13:10.5355652Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/netCDF4_.py", line 645 in open_dataset
2024-07-02T10:13:10.5357253Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/xarray/backends/api.py", line 571 in open_dataset
2024-07-02T10:13:10.5358970Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/utils.py", line 78 in apply
2024-07-02T10:13:10.5360529Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/core.py", line 127 in _execute_task
2024-07-02T10:13:10.5361984Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 225 in execute_task
2024-07-02T10:13:10.5363479Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 239 in <listcomp>
2024-07-02T10:13:10.5365433Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/dask/local.py", line 239 in batch_execute_tasks
2024-07-02T10:13:10.5366731Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 58 in run
2024-07-02T10:13:10.5367804Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/concurrent/futures/thread.py", line 83 in _worker
2024-07-02T10:13:10.5369111Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 917 in run
2024-07-02T10:13:10.5370142Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 980 in _bootstrap_inner
2024-07-02T10:13:10.5371229Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/threading.py", line 937 in _bootstrap
2024-07-02T10:13:10.5371753Z 
2024-07-02T10:13:10.5371945Z Thread 0x00007f10ff8b1b80 (most recent call first):
2024-07-02T10:13:10.5372727Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/pathlib.py", line 700 in _parse_args
2024-07-02T10:13:10.5373747Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/pathlib.py", line 713 in _from_parts
2024-07-02T10:13:10.5374648Z   File "/opt/hostedtoolcache/Python/3.9.19/x64/lib/python3.9/pathlib.py", line 1087 in __new__
2024-07-02T10:13:10.5376020Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/pathlib.py", line 933 in absolutepath
2024-07-02T10:13:10.5377604Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/_code/code.py", line 94 in path
2024-07-02T10:13:10.5379092Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/_code/code.py", line 364 in cut
2024-07-02T10:13:10.5380604Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/python.py", line 1642 in _traceback_filter
2024-07-02T10:13:10.5382249Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/_code/code.py", line 972 in repr_traceback
2024-07-02T10:13:10.5383838Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/_code/code.py", line 1063 in repr_excinfo
2024-07-02T10:13:10.5385381Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/_code/code.py", line 696 in getrepr
2024-07-02T10:13:10.5386945Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/nodes.py", line 462 in _repr_failure_py
2024-07-02T10:13:10.5388508Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/python.py", line 1674 in repr_failure
2024-07-02T10:13:10.5390066Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/reports.py", line 363 in from_item_and_call
2024-07-02T10:13:10.5391748Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/runner.py", line 368 in pytest_runtest_makereport
2024-07-02T10:13:10.5393312Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_callers.py", line 103 in _multicall
2024-07-02T10:13:10.5395031Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_manager.py", line 120 in _hookexec
2024-07-02T10:13:10.5396653Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_hooks.py", line 513 in __call__
2024-07-02T10:13:10.5398210Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/runner.py", line 243 in call_and_report
2024-07-02T10:13:10.5399718Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/runner.py", line 135 in runtestprotocol
2024-07-02T10:13:10.5401400Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/runner.py", line 116 in pytest_runtest_protocol
2024-07-02T10:13:10.5403008Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_callers.py", line 103 in _multicall
2024-07-02T10:13:10.5404671Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_manager.py", line 120 in _hookexec
2024-07-02T10:13:10.5406585Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_hooks.py", line 513 in __call__
2024-07-02T10:13:10.5408088Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/main.py", line 364 in pytest_runtestloop
2024-07-02T10:13:10.5409648Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_callers.py", line 103 in _multicall
2024-07-02T10:13:10.5411243Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_manager.py", line 120 in _hookexec
2024-07-02T10:13:10.5412730Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_hooks.py", line 513 in __call__
2024-07-02T10:13:10.5414181Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/main.py", line 339 in _main
2024-07-02T10:13:10.5415753Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/main.py", line 285 in wrap_session
2024-07-02T10:13:10.5417306Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/main.py", line 332 in pytest_cmdline_main
2024-07-02T10:13:10.5418902Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_callers.py", line 103 in _multicall
2024-07-02T10:13:10.5420376Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_manager.py", line 120 in _hookexec
2024-07-02T10:13:10.5421870Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/pluggy/_hooks.py", line 513 in __call__
2024-07-02T10:13:10.5423440Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/config/__init__.py", line 178 in main
2024-07-02T10:13:10.5425003Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/lib/python3.9/site-packages/_pytest/config/__init__.py", line 206 in console_main
2024-07-02T10:13:10.5426319Z   File "/home/runner/.cache/pypoetry/virtualenvs/xnemogcm-8p4nxG08-py3.9/bin/pytest", line 8 in <module>
2024-07-02T10:13:10.6289789Z /home/runner/work/_temp/fb595c46-932b-4398-9294-1d3cf3361a96.sh: line 1:  2065 Segmentation fault      (core dumped) poetry run pytest xnemogcm/test
2024-07-02T10:13:10.6291257Z xnemogcm/test/test_dask.py ...
2024-07-02T10:13:10.6304347Z ##[error]Process completed with exit code 139.
2024-07-02T10:13:10.6387766Z Post job cleanup.
2024-07-02T10:13:10.7446003Z [command]/usr/bin/git version
2024-07-02T10:13:10.7498582Z git version 2.45.2
2024-07-02T10:13:10.7543229Z Temporarily overriding HOME='/home/runner/work/_temp/5f0f1043-a22d-48fe-ae31-5d5a055311ee' before making global git config changes
2024-07-02T10:13:10.7545397Z Adding repository directory to the temporary git global config as a safe directory
2024-07-02T10:13:10.7550271Z [command]/usr/bin/git config --global --add safe.directory /home/runner/work/xnemogcm/xnemogcm
2024-07-02T10:13:10.7599746Z [command]/usr/bin/git config --local --name-only --get-regexp core\.sshCommand
2024-07-02T10:13:10.7643383Z [command]/usr/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'core\.sshCommand' && git config --local --unset-all 'core.sshCommand' || :"
2024-07-02T10:13:10.7906167Z [command]/usr/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2024-07-02T10:13:10.7946796Z http.https://github.com/.extraheader
2024-07-02T10:13:10.7956973Z [command]/usr/bin/git config --local --unset-all http.https://github.com/.extraheader
2024-07-02T10:13:10.8008227Z [command]/usr/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'http\.https\:\/\/github\.com\/\.extraheader' && git config --local --unset-all 'http.https://github.com/.extraheader' || :"
2024-07-02T10:13:10.8531067Z Cleaning up orphan processes

[rcaneill]

this seems to come from non safe threads
pydata/xarray#7079