﻿2026-01-05T01:33:08.8995919Z Current runner version: '2.330.0'
2026-01-05T01:33:08.9020768Z ##[group]Runner Image Provisioner
2026-01-05T01:33:08.9021631Z Hosted Compute Agent
2026-01-05T01:33:08.9022170Z Version: 20251211.462
2026-01-05T01:33:08.9022878Z Commit: 6cbad8c2bb55d58165063d031ccabf57e2d2db61
2026-01-05T01:33:08.9023597Z Build Date: 2025-12-11T16:28:49Z
2026-01-05T01:33:08.9024209Z Worker ID: {31bdd486-806e-4741-9f9e-834734f7b524}
2026-01-05T01:33:08.9024989Z ##[endgroup]
2026-01-05T01:33:08.9025497Z ##[group]Operating System
2026-01-05T01:33:08.9026276Z Ubuntu
2026-01-05T01:33:08.9026802Z 24.04.3
2026-01-05T01:33:08.9027298Z LTS
2026-01-05T01:33:08.9027726Z ##[endgroup]
2026-01-05T01:33:08.9028302Z ##[group]Runner Image
2026-01-05T01:33:08.9028864Z Image: ubuntu-24.04
2026-01-05T01:33:08.9029341Z Version: 20251215.174.1
2026-01-05T01:33:08.9030548Z Included Software: https://github.com/actions/runner-images/blob/ubuntu24/20251215.174/images/ubuntu/Ubuntu2404-Readme.md
2026-01-05T01:33:08.9032443Z Image Release: https://github.com/actions/runner-images/releases/tag/ubuntu24%2F20251215.174
2026-01-05T01:33:08.9033584Z ##[endgroup]
2026-01-05T01:33:08.9036153Z ##[group]GITHUB_TOKEN Permissions
2026-01-05T01:33:08.9038286Z Actions: write
2026-01-05T01:33:08.9038976Z ArtifactMetadata: write
2026-01-05T01:33:08.9039536Z Attestations: write
2026-01-05T01:33:08.9040193Z Checks: write
2026-01-05T01:33:08.9040786Z Contents: write
2026-01-05T01:33:08.9041260Z Deployments: write
2026-01-05T01:33:08.9041793Z Discussions: write
2026-01-05T01:33:08.9042336Z Issues: write
2026-01-05T01:33:08.9042847Z Metadata: read
2026-01-05T01:33:08.9043309Z Models: read
2026-01-05T01:33:08.9043856Z Packages: write
2026-01-05T01:33:08.9044368Z Pages: write
2026-01-05T01:33:08.9044865Z PullRequests: write
2026-01-05T01:33:08.9045559Z RepositoryProjects: write
2026-01-05T01:33:08.9046116Z SecurityEvents: write
2026-01-05T01:33:08.9046660Z Statuses: write
2026-01-05T01:33:08.9047155Z ##[endgroup]
2026-01-05T01:33:08.9049345Z Secret source: Actions
2026-01-05T01:33:08.9050288Z Prepare workflow directory
2026-01-05T01:33:08.9439457Z Prepare all required actions
2026-01-05T01:33:08.9479959Z Getting action download info
2026-01-05T01:33:09.4067133Z Download action repository 'actions/checkout@v4' (SHA:34e114876b0b11c390a56381ad16ebd13914f8d5)
2026-01-05T01:33:09.5880437Z Download action repository 'actions/setup-python@v5' (SHA:a26af69be951a213d495a4c3e4e4022e16d87065)
2026-01-05T01:33:09.6698677Z Download action repository 'actions/download-artifact@v4' (SHA:d3f86a106a0bac45b974a628896c90dbdf5c8093)
2026-01-05T01:33:10.7632016Z Complete job name: Test wheels on ubuntu-latest with Python 3.12
2026-01-05T01:33:10.8296930Z ##[group]Run actions/checkout@v4
2026-01-05T01:33:10.8297903Z with:
2026-01-05T01:33:10.8298410Z   repository: worm-portal/aqequil
2026-01-05T01:33:10.8299161Z   token: ***
2026-01-05T01:33:10.8299882Z   ssh-strict: true
2026-01-05T01:33:10.8300387Z   ssh-user: git
2026-01-05T01:33:10.8300881Z   persist-credentials: true
2026-01-05T01:33:10.8301457Z   clean: true
2026-01-05T01:33:10.8301978Z   sparse-checkout-cone-mode: true
2026-01-05T01:33:10.8302552Z   fetch-depth: 1
2026-01-05T01:33:10.8303029Z   fetch-tags: false
2026-01-05T01:33:10.8303521Z   show-progress: true
2026-01-05T01:33:10.8304009Z   lfs: false
2026-01-05T01:33:10.8304476Z   submodules: false
2026-01-05T01:33:10.8304995Z   set-safe-directory: true
2026-01-05T01:33:10.8305832Z ##[endgroup]
2026-01-05T01:33:10.9424826Z Syncing repository: worm-portal/aqequil
2026-01-05T01:33:10.9427396Z ##[group]Getting Git version info
2026-01-05T01:33:10.9428845Z Working directory is '/home/runner/work/aqequil/aqequil'
2026-01-05T01:33:10.9431198Z [command]/usr/bin/git version
2026-01-05T01:33:10.9547036Z git version 2.52.0
2026-01-05T01:33:10.9576879Z ##[endgroup]
2026-01-05T01:33:10.9603142Z Temporarily overriding HOME='/home/runner/work/_temp/ffedc0f7-a69f-4c8b-bd28-323a31d69223' before making global git config changes
2026-01-05T01:33:10.9605906Z Adding repository directory to the temporary git global config as a safe directory
2026-01-05T01:33:10.9609975Z [command]/usr/bin/git config --global --add safe.directory /home/runner/work/aqequil/aqequil
2026-01-05T01:33:10.9660320Z Deleting the contents of '/home/runner/work/aqequil/aqequil'
2026-01-05T01:33:10.9664506Z ##[group]Initializing the repository
2026-01-05T01:33:10.9671038Z [command]/usr/bin/git init /home/runner/work/aqequil/aqequil
2026-01-05T01:33:10.9821892Z hint: Using 'master' as the name for the initial branch. This default branch name
2026-01-05T01:33:10.9823088Z hint: will change to "main" in Git 3.0. To configure the initial branch name
2026-01-05T01:33:10.9824852Z hint: to use in all of your new repositories, which will suppress this warning,
2026-01-05T01:33:10.9826366Z hint: call:
2026-01-05T01:33:10.9827139Z hint:
2026-01-05T01:33:10.9828090Z hint: 	git config --global init.defaultBranch <name>
2026-01-05T01:33:10.9829214Z hint:
2026-01-05T01:33:10.9830312Z hint: Names commonly chosen instead of 'master' are 'main', 'trunk' and
2026-01-05T01:33:10.9831380Z hint: 'development'. The just-created branch can be renamed via this command:
2026-01-05T01:33:10.9832201Z hint:
2026-01-05T01:33:10.9832664Z hint: 	git branch -m <name>
2026-01-05T01:33:10.9833229Z hint:
2026-01-05T01:33:10.9833911Z hint: Disable this message with "git config set advice.defaultBranchName false"
2026-01-05T01:33:10.9835025Z Initialized empty Git repository in /home/runner/work/aqequil/aqequil/.git/
2026-01-05T01:33:10.9846031Z [command]/usr/bin/git remote add origin https://github.com/worm-portal/aqequil
2026-01-05T01:33:10.9889252Z ##[endgroup]
2026-01-05T01:33:10.9890377Z ##[group]Disabling automatic garbage collection
2026-01-05T01:33:10.9895113Z [command]/usr/bin/git config --local gc.auto 0
2026-01-05T01:33:10.9938517Z ##[endgroup]
2026-01-05T01:33:10.9939364Z ##[group]Setting up auth
2026-01-05T01:33:10.9940319Z [command]/usr/bin/git config --local --name-only --get-regexp core\.sshCommand
2026-01-05T01:33:10.9973873Z [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' || :"
2026-01-05T01:33:11.0401397Z [command]/usr/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2026-01-05T01:33:11.0433987Z [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' || :"
2026-01-05T01:33:11.0653598Z [command]/usr/bin/git config --local --name-only --get-regexp ^includeIf\.gitdir:
2026-01-05T01:33:11.0687284Z [command]/usr/bin/git submodule foreach --recursive git config --local --show-origin --name-only --get-regexp remote.origin.url
2026-01-05T01:33:11.0906689Z [command]/usr/bin/git config --local http.https://github.com/.extraheader AUTHORIZATION: basic ***
2026-01-05T01:33:11.0940624Z ##[endgroup]
2026-01-05T01:33:11.0941713Z ##[group]Fetching the repository
2026-01-05T01:33:11.0948871Z [command]/usr/bin/git -c protocol.version=2 fetch --no-tags --prune --no-recurse-submodules --depth=1 origin +0fba8641708a9a29f5cf75d5e1aa5af56402a902:refs/tags/v1.0.1
2026-01-05T01:33:11.9670920Z From https://github.com/worm-portal/aqequil
2026-01-05T01:33:11.9674914Z  * [new ref]         0fba8641708a9a29f5cf75d5e1aa5af56402a902 -> v1.0.1
2026-01-05T01:33:11.9701574Z ##[endgroup]
2026-01-05T01:33:11.9703323Z ##[group]Determining the checkout info
2026-01-05T01:33:11.9704672Z ##[endgroup]
2026-01-05T01:33:11.9707861Z [command]/usr/bin/git sparse-checkout disable
2026-01-05T01:33:11.9748700Z [command]/usr/bin/git config --local --unset-all extensions.worktreeConfig
2026-01-05T01:33:11.9774133Z ##[group]Checking out the ref
2026-01-05T01:33:11.9777259Z [command]/usr/bin/git checkout --progress --force refs/tags/v1.0.1
2026-01-05T01:33:12.0711927Z Note: switching to 'refs/tags/v1.0.1'.
2026-01-05T01:33:12.0713130Z 
2026-01-05T01:33:12.0714116Z You are in 'detached HEAD' state. You can look around, make experimental
2026-01-05T01:33:12.0717178Z changes and commit them, and you can discard any commits you make in this
2026-01-05T01:33:12.0719463Z state without impacting any branches by switching back to a branch.
2026-01-05T01:33:12.0720738Z 
2026-01-05T01:33:12.0721444Z If you want to create a new branch to retain commits you create, you may
2026-01-05T01:33:12.0723125Z do so (now or later) by using -c with the switch command. Example:
2026-01-05T01:33:12.0724457Z 
2026-01-05T01:33:12.0724826Z   git switch -c <new-branch-name>
2026-01-05T01:33:12.0725444Z 
2026-01-05T01:33:12.0725788Z Or undo this operation with:
2026-01-05T01:33:12.0726370Z 
2026-01-05T01:33:12.0726659Z   git switch -
2026-01-05T01:33:12.0727088Z 
2026-01-05T01:33:12.0727968Z Turn off this advice by setting config variable advice.detachedHead to false
2026-01-05T01:33:12.0729068Z 
2026-01-05T01:33:12.0730095Z HEAD is now at 0fba864 Add automatic versioning from git tags using setuptools_scm
2026-01-05T01:33:12.0733782Z ##[endgroup]
2026-01-05T01:33:12.0764546Z [command]/usr/bin/git log -1 --format=%H
2026-01-05T01:33:12.0786227Z 0fba8641708a9a29f5cf75d5e1aa5af56402a902
2026-01-05T01:33:12.1125780Z ##[group]Run actions/setup-python@v5
2026-01-05T01:33:12.1127045Z with:
2026-01-05T01:33:12.1127927Z   python-version: 3.12
2026-01-05T01:33:12.1128962Z   check-latest: false
2026-01-05T01:33:12.1130459Z   token: ***
2026-01-05T01:33:12.1131394Z   update-environment: true
2026-01-05T01:33:12.1132516Z   allow-prereleases: false
2026-01-05T01:33:12.1133606Z   freethreaded: false
2026-01-05T01:33:12.1134578Z ##[endgroup]
2026-01-05T01:33:12.2807286Z ##[group]Installed versions
2026-01-05T01:33:12.2939502Z Successfully set up CPython (3.12.12)
2026-01-05T01:33:12.2942501Z ##[endgroup]
2026-01-05T01:33:12.3150863Z ##[group]Run actions/download-artifact@v4
2026-01-05T01:33:12.3152078Z with:
2026-01-05T01:33:12.3152878Z   name: wheels-ubuntu-latest
2026-01-05T01:33:12.3153895Z   path: wheelhouse
2026-01-05T01:33:12.3154784Z   merge-multiple: false
2026-01-05T01:33:12.3155786Z   repository: worm-portal/aqequil
2026-01-05T01:33:12.3156864Z   run-id: 20702070857
2026-01-05T01:33:12.3157704Z env:
2026-01-05T01:33:12.3158736Z   pythonLocation: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:12.3160717Z   PKG_CONFIG_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib/pkgconfig
2026-01-05T01:33:12.3162581Z   Python_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:12.3164248Z   Python2_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:12.3165930Z   Python3_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:12.3167643Z   LD_LIBRARY_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib
2026-01-05T01:33:12.3169054Z ##[endgroup]
2026-01-05T01:33:12.5223265Z Downloading single artifact
2026-01-05T01:33:12.7659852Z Preparing to download the following artifacts:
2026-01-05T01:33:12.7662703Z - wheels-ubuntu-latest (ID: 5019911133, Size: 24825482, Expected Digest: sha256:a6d43ff313b13b3a568b82ecd8c330433356ae553a4f11dccf013c81efd55f84)
2026-01-05T01:33:12.9199402Z Redirecting to blob download url: https://productionresultssa18.blob.core.windows.net/actions-results/26a74c06-72e1-4403-8f14-91bf0d49fcbc/workflow-job-run-10b32453-0282-5d43-9cab-5c3accd2aafc/artifacts/2d6b53937ef398bfc8399b6b7ef6373c2af7892c0717a43682f51187fe1997a9.zip
2026-01-05T01:33:12.9205660Z Starting download of artifact to: /home/runner/work/aqequil/aqequil/wheelhouse
2026-01-05T01:33:13.1696914Z (node:2128) [DEP0005] DeprecationWarning: Buffer() is deprecated due to security and usability issues. Please use the Buffer.alloc(), Buffer.allocUnsafe(), or Buffer.from() methods instead.
2026-01-05T01:33:13.1703342Z (Use `node --trace-deprecation ...` to show where the warning was created)
2026-01-05T01:33:14.3937175Z SHA256 digest of downloaded artifact is a6d43ff313b13b3a568b82ecd8c330433356ae553a4f11dccf013c81efd55f84
2026-01-05T01:33:14.3937869Z Artifact download completed successfully.
2026-01-05T01:33:14.3938337Z Total of 1 artifact(s) downloaded
2026-01-05T01:33:14.3943501Z Download artifact has finished successfully
2026-01-05T01:33:14.4077763Z ##[group]Run PYVER=$(echo "3.12" | tr -d '.')
2026-01-05T01:33:14.4078164Z [36;1mPYVER=$(echo "3.12" | tr -d '.')[0m
2026-01-05T01:33:14.4078552Z [36;1mpython -m pip install wheelhouse/aqequil-*-cp${PYVER}-*.whl[0m
2026-01-05T01:33:14.4161017Z shell: /usr/bin/bash --noprofile --norc -e -o pipefail {0}
2026-01-05T01:33:14.4161380Z env:
2026-01-05T01:33:14.4161648Z   pythonLocation: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:14.4162101Z   PKG_CONFIG_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib/pkgconfig
2026-01-05T01:33:14.4162531Z   Python_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:14.4162916Z   Python2_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:14.4163327Z   Python3_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:14.4163711Z   LD_LIBRARY_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib
2026-01-05T01:33:14.4164029Z ##[endgroup]
2026-01-05T01:33:17.7316452Z Processing ./wheelhouse/aqequil-1.0.2.dev0+g0fba86417.d20260105-cp312-cp312-manylinux_2_28_x86_64.whl
2026-01-05T01:33:17.9913829Z Collecting pandas (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.0688836Z   Downloading pandas-2.3.3-cp312-cp312-manylinux_2_24_x86_64.manylinux_2_28_x86_64.whl.metadata (91 kB)
2026-01-05T01:33:18.3575860Z Collecting numpy (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.3683778Z   Downloading numpy-2.4.0-cp312-cp312-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl.metadata (6.6 kB)
2026-01-05T01:33:18.5259512Z Collecting matplotlib (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.5366820Z   Downloading matplotlib-3.10.8-cp312-cp312-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (52 kB)
2026-01-05T01:33:18.6011918Z Collecting plotly (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.6113424Z   Downloading plotly-6.5.0-py3-none-any.whl.metadata (8.5 kB)
2026-01-05T01:33:18.6676467Z Collecting ipython (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.6777661Z   Downloading ipython-9.8.0-py3-none-any.whl.metadata (4.5 kB)
2026-01-05T01:33:18.7026636Z Collecting chemparse (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.7135526Z   Downloading chemparse-0.3.2-py3-none-any.whl.metadata (1.7 kB)
2026-01-05T01:33:18.7360816Z Collecting dill (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.7460084Z   Downloading dill-0.4.0-py3-none-any.whl.metadata (10 kB)
2026-01-05T01:33:18.7672328Z Collecting periodictable (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.7777353Z   Downloading periodictable-2.0.2-py3-none-any.whl.metadata (5.4 kB)
2026-01-05T01:33:18.8102013Z Collecting natsort (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.8207546Z   Downloading natsort-8.4.0-py3-none-any.whl.metadata (21 kB)
2026-01-05T01:33:18.8430883Z Collecting roman (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.8536785Z   Downloading roman-5.2-py3-none-any.whl.metadata (4.3 kB)
2026-01-05T01:33:18.8957381Z Collecting ipywidgets (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.9097050Z   Downloading ipywidgets-8.1.8-py3-none-any.whl.metadata (2.4 kB)
2026-01-05T01:33:18.9317985Z Collecting wormutils (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:18.9427408Z   Downloading wormutils-0.2.0-py3-none-any.whl.metadata (723 bytes)
2026-01-05T01:33:18.9799316Z Collecting pychnosz (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.2580542Z   Downloading pychnosz-1.1.12-cp312-cp312-manylinux_2_28_x86_64.whl.metadata (8.2 kB)
2026-01-05T01:33:19.2846644Z Collecting decorator>=4.3.2 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.2944388Z   Downloading decorator-5.2.1-py3-none-any.whl.metadata (3.9 kB)
2026-01-05T01:33:19.3123493Z Collecting ipython-pygments-lexers>=1.0.0 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.3223063Z   Downloading ipython_pygments_lexers-1.1.1-py3-none-any.whl.metadata (1.1 kB)
2026-01-05T01:33:19.3441103Z Collecting jedi>=0.18.1 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.3540574Z   Downloading jedi-0.19.2-py2.py3-none-any.whl.metadata (22 kB)
2026-01-05T01:33:19.3802918Z Collecting matplotlib-inline>=0.1.5 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.3903200Z   Downloading matplotlib_inline-0.2.1-py3-none-any.whl.metadata (2.3 kB)
2026-01-05T01:33:19.4099988Z Collecting pexpect>4.3 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:33:19.4196608Z   Downloading pexpect-4.9.0-py2.py3-none-any.whl.metadata (2.5 kB)
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2026-01-05T01:33:23.4222842Z Downloading urllib3-2.6.2-py3-none-any.whl (131 kB)
2026-01-05T01:33:23.4361898Z Downloading certifi-2026.1.4-py3-none-any.whl (152 kB)
2026-01-05T01:33:23.7632431Z Installing collected packages: pytz, pure-eval, ptyprocess, widgetsnbextension, wcwidth, urllib3, tzdata, traitlets, six, roman, pyparsing, pygments, pillow, pexpect, parso, packaging, numpy, natsort, narwhals, kiwisolver, jupyterlab_widgets, importlib_resources, idna, fonttools, executing, dill, decorator, cycler, comm, chemparse, charset_normalizer, certifi, asttokens, stack_data, scipy, requests, python-dateutil, prompt_toolkit, plotly, periodictable, matplotlib-inline, jedi, ipython-pygments-lexers, contourpy, pandas, matplotlib, ipython, wormutils, pychnosz, ipywidgets, aqequil
2026-01-05T01:33:43.2507976Z 
2026-01-05T01:33:43.2560233Z Successfully installed aqequil-1.0.2.dev0+g0fba86417.d20260105 asttokens-3.0.1 certifi-2026.1.4 charset_normalizer-3.4.4 chemparse-0.3.2 comm-0.2.3 contourpy-1.3.3 cycler-0.12.1 decorator-5.2.1 dill-0.4.0 executing-2.2.1 fonttools-4.61.1 idna-3.11 importlib_resources-6.5.2 ipython-9.8.0 ipython-pygments-lexers-1.1.1 ipywidgets-8.1.8 jedi-0.19.2 jupyterlab_widgets-3.0.16 kiwisolver-1.4.9 matplotlib-3.10.8 matplotlib-inline-0.2.1 narwhals-2.14.0 natsort-8.4.0 numpy-2.4.0 packaging-25.0 pandas-2.3.3 parso-0.8.5 periodictable-2.0.2 pexpect-4.9.0 pillow-12.1.0 plotly-6.5.0 prompt_toolkit-3.0.52 ptyprocess-0.7.0 pure-eval-0.2.3 pychnosz-1.1.12 pygments-2.19.2 pyparsing-3.3.1 python-dateutil-2.9.0.post0 pytz-2025.2 requests-2.32.5 roman-5.2 scipy-1.16.3 six-1.17.0 stack_data-0.6.3 traitlets-5.14.3 tzdata-2025.3 urllib3-2.6.2 wcwidth-0.2.14 widgetsnbextension-4.0.15 wormutils-0.2.0
2026-01-05T01:33:43.6133255Z ##[group]Run cp "$GITHUB_WORKSPACE/test_integration.py" "$RUNNER_TEMP/"
2026-01-05T01:33:43.6133808Z [36;1mcp "$GITHUB_WORKSPACE/test_integration.py" "$RUNNER_TEMP/"[0m
2026-01-05T01:33:43.6134184Z [36;1mcd "$RUNNER_TEMP"[0m
2026-01-05T01:33:43.6134425Z [36;1mpython test_integration.py[0m
2026-01-05T01:33:43.6167860Z shell: /usr/bin/bash --noprofile --norc -e -o pipefail {0}
2026-01-05T01:33:43.6168186Z env:
2026-01-05T01:33:43.6168445Z   pythonLocation: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:43.6168868Z   PKG_CONFIG_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib/pkgconfig
2026-01-05T01:33:43.6169294Z   Python_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:43.6169906Z   Python2_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:43.6170365Z   Python3_ROOT_DIR: /opt/hostedtoolcache/Python/3.12.12/x64
2026-01-05T01:33:43.6170743Z   LD_LIBRARY_PATH: /opt/hostedtoolcache/Python/3.12.12/x64/lib
2026-01-05T01:33:43.6171081Z ##[endgroup]
2026-01-05T01:34:14.2741523Z 
2026-01-05T01:34:14.2742028Z ============================================================
2026-01-05T01:34:14.2742595Z AQEQUIL INTEGRATION TEST SUITE
2026-01-05T01:34:14.2743060Z ============================================================
2026-01-05T01:34:14.2743650Z Python: 3.12.12
2026-01-05T01:34:14.2744020Z Platform: linux
2026-01-05T01:34:14.2744445Z Architecture: x86_64
2026-01-05T01:34:14.2744930Z ============================================================
2026-01-05T01:34:14.2745422Z ============================================================
2026-01-05T01:34:14.2745997Z Test 1: Checking for bundled EQ3/6 executables
2026-01-05T01:34:14.2746518Z ============================================================
2026-01-05T01:34:14.2747429Z [OK] Found bundled executables at: /opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/aqequil/bin
2026-01-05T01:34:14.2748349Z   [OK] eq3nr (1.04 MB)
2026-01-05T01:34:14.2748701Z   [OK] eq6 (1.76 MB)
2026-01-05T01:34:14.2749042Z   [OK] eqpt (0.62 MB)
2026-01-05T01:34:14.2749248Z 
2026-01-05T01:34:14.2749411Z ============================================================
2026-01-05T01:34:14.2750171Z Test 2: Testing aqequil import and basic usage
2026-01-05T01:34:14.2750674Z ============================================================
2026-01-05T01:34:14.2751150Z [OK] Successfully imported aqequil
2026-01-05T01:34:14.2752105Z [OK] Found test data at: /opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv
2026-01-05T01:34:14.2752826Z 
2026-01-05T01:34:14.2752941Z ============================================================
2026-01-05T01:34:14.2753307Z Test 3: Downloading latest data0.wrm from WORM-db
2026-01-05T01:34:14.2753635Z ============================================================
2026-01-05T01:34:14.2754186Z Downloading data0.wrm from https://raw.githubusercontent.com/worm-portal/WORM-db/master/data0.wrm...
2026-01-05T01:34:14.2754741Z [OK] Downloaded data0.wrm (573.8 KB)
2026-01-05T01:34:14.2755080Z [OK] Copied data0.wrm to test_data (replaced existing)
2026-01-05T01:34:14.2755451Z [OK] Copied data0.wrm to databases (replaced existing)
2026-01-05T01:34:14.2755689Z 
2026-01-05T01:34:14.2755789Z ============================================================
2026-01-05T01:34:14.2756115Z Test 4: Testing runeqpt (data0 to data1 conversion)
2026-01-05T01:34:14.2756420Z ============================================================
2026-01-05T01:34:14.2756722Z [INFO] Working directory: /tmp/tmpzvtuvj_7
2026-01-05T01:34:14.2757026Z [OK] Copied data0.wrm to working directory
2026-01-05T01:34:14.2757597Z Running EQPT on data0.wrm...
2026-01-05T01:34:14.2757818Z [OK] EQPT completed
2026-01-05T01:34:14.2758030Z [OK] data1.wrm created (0.36 MB)
2026-01-05T01:34:14.2758351Z [OK] Copied data1.wrm to bundled databases (replaced existing)
2026-01-05T01:34:14.2758600Z 
2026-01-05T01:34:14.2758702Z ============================================================
2026-01-05T01:34:14.2759190Z Test 5: Testing simple speciation (wrm database)
2026-01-05T01:34:14.2759492Z ============================================================
2026-01-05T01:34:14.2760343Z Running speciation on /opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv...
2026-01-05T01:34:14.2760941Z [INFO] Working directory: /tmp/tmphd017gmt
2026-01-05T01:34:14.2761226Z [OK] Copied data0.wrm to working directory
2026-01-05T01:34:14.2761499Z Running EQPT to create data1.wrm...
2026-01-05T01:34:14.2761753Z [OK] EQPT completed, data1.wrm created
2026-01-05T01:34:14.2762040Z [OK] AqEquil instance created with wrm database
2026-01-05T01:34:14.2762672Z The input file column 'logfO2' will be used to set sample redox state. If a another column is desired, set it manually using the redox_flag parameter.
2026-01-05T01:34:14.2763466Z No 'charge_balance_on' column found in input file. Defaulting to no charge balancing for all samples.
2026-01-05T01:34:14.2764211Z Warning: no 'logfO2' column found. Attempting to find a column for aqueous O2 to estimate logfO2 at sample temperature and pressure...
2026-01-05T01:34:14.2764792Z Using wrm to speciate Bison Pool
2026-01-05T01:34:14.2765065Z Using wrm to speciate Spray Geyser Source
2026-01-05T01:34:14.2765638Z Warning: non-numeric aqueous O2 value in sample Crater Hills Geyser. Resorting to using Log fO2 (log bars) with a value of -6
2026-01-05T01:34:14.2766195Z Using wrm to speciate Crater Hills Geyser
2026-01-05T01:34:14.2766467Z Using wrm to speciate Ambergris
2026-01-05T01:34:14.2766713Z Using wrm to speciate MLS Source
2026-01-05T01:34:14.2766954Z Using wrm to speciate Gas Crack
2026-01-05T01:34:14.2767190Z Using wrm to speciate Snail
2026-01-05T01:34:14.2767410Z Finished!
2026-01-05T01:34:14.2767590Z [OK] Speciation completed
2026-01-05T01:34:14.2767848Z [OK] aq_distribution is a DataFrame with 81 rows
2026-01-05T01:34:14.2768058Z 
2026-01-05T01:34:14.2768158Z ============================================================
2026-01-05T01:34:14.2768446Z Test 6: Testing water-rock reaction
2026-01-05T01:34:14.2768705Z ============================================================
2026-01-05T01:34:14.2769293Z Running speciation on /opt/hostedtoolcache/Python/3.12.12/x64/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv...
2026-01-05T01:34:14.2770071Z [INFO] Working directory: /tmp/tmpvbgu_03s
2026-01-05T01:34:14.2770451Z [OK] Copied wrm_data_latest.csv to bundled databases (replaced existing)
2026-01-05T01:34:14.2770901Z [OK] Copied elements.csv to bundled databases (replaced existing)
2026-01-05T01:34:14.2771410Z [OK] Copied solid_solutions.csv to bundled databases (replaced existing)
2026-01-05T01:34:14.2771906Z [OK] Copied wrm_data_logk.csv to bundled databases (replaced existing)
2026-01-05T01:34:14.2772341Z [OK] Copied wrm_data_logk_s.csv to bundled databases (replaced existing)
2026-01-05T01:34:14.2773043Z The input file column 'logfO2' will be used to set sample redox state. If a another column is desired, set it manually using the redox_flag parameter.
2026-01-05T01:34:14.2773730Z Getting wrm_data_latest.csv ready. This will take a moment...
2026-01-05T01:34:14.2774246Z No 'charge_balance_on' column found in input file. Defaulting to no charge balancing for all samples.
2026-01-05T01:34:14.2774927Z Warning: a column for Pressure was not found in the sample input file. Defaulting to water saturation pressure...
2026-01-05T01:34:14.2775719Z Warning: no 'logfO2' column found. Attempting to find a column for aqueous O2 to estimate logfO2 at sample temperature and pressure...
2026-01-05T01:34:14.2776312Z Using wrm_data_latest.csv to speciate Bison Pool
2026-01-05T01:34:14.2776819Z Using wrm_data_latest.csv to speciate Spray Geyser Source
2026-01-05T01:34:14.2777409Z Warning: non-numeric aqueous O2 value in sample Crater Hills Geyser. Resorting to using Log fO2 (log bars) with a value of -6
2026-01-05T01:34:14.2777996Z Using wrm_data_latest.csv to speciate Crater Hills Geyser
2026-01-05T01:34:14.2778539Z Using wrm_data_latest.csv to speciate Ambergris
2026-01-05T01:34:14.2778872Z Using wrm_data_latest.csv to speciate MLS Source
2026-01-05T01:34:14.2779177Z Using wrm_data_latest.csv to speciate Gas Crack
2026-01-05T01:34:14.2779485Z Using wrm_data_latest.csv to speciate Snail
2026-01-05T01:34:14.2779927Z Finished!
2026-01-05T01:34:14.2780120Z [OK] Initial speciation completed
2026-01-05T01:34:14.2780366Z [OK] Reaction prepared
2026-01-05T01:34:14.2780588Z Running water-rock reaction...
2026-01-05T01:34:14.2780847Z Using wrm_data_latest.csv to react Bison.Pool
2026-01-05T01:34:14.2781040Z 
2026-01-05T01:34:14.2781198Z The sample 'Bison Pool' experienced errors during the reaction:
2026-01-05T01:34:14.2781606Z  * Error - (EQ6/intmtb) A mass balance is defined on the input
2026-01-05T01:34:14.2782006Z        file for NH4+ (Aqueous solution), but this species isn't in the
2026-01-05T01:34:14.2782434Z        currently active basis set. Either it isn't on the current data file
2026-01-05T01:34:14.2782867Z        or it has been suppressed as by an nxmod or iopt(15) option.
2026-01-05T01:34:14.2783115Z 
2026-01-05T01:34:14.2783454Z Mass transfer results for sample 'Bison Pool' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:34:14.2783888Z 
2026-01-05T01:34:14.2784028Z Using wrm_data_latest.csv to react Spray.Geyser.Source
2026-01-05T01:34:14.2784249Z 
2026-01-05T01:34:14.2784433Z The sample 'Spray Geyser Source' experienced errors during the reaction:
2026-01-05T01:34:14.2784854Z  * Error - (EQ6/intrct) The reactant antigorite isn't among
2026-01-05T01:34:14.2785168Z        the loaded minerals.
2026-01-05T01:34:14.2785309Z 
2026-01-05T01:34:14.2785689Z Mass transfer results for sample 'Spray Geyser Source' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:34:14.2786153Z 
2026-01-05T01:34:14.2786286Z Using wrm_data_latest.csv to react Crater.Hills.Geyser
2026-01-05T01:34:14.2786610Z Using wrm_data_latest.csv to react Ambergris
2026-01-05T01:34:14.2786908Z Using wrm_data_latest.csv to react MLS.Source
2026-01-05T01:34:14.2787202Z Using wrm_data_latest.csv to react Gas.Crack
2026-01-05T01:34:14.2787386Z 
2026-01-05T01:34:14.2787539Z The sample 'Gas Crack' experienced errors during the reaction:
2026-01-05T01:34:14.2787971Z  * Error - (EQ6/path) The equilibrium calculation failed at the initial value
2026-01-05T01:34:14.2788345Z        of reaction progress.
2026-01-05T01:34:14.2788496Z 
2026-01-05T01:34:14.2788830Z Mass transfer results for sample 'Gas Crack' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:34:14.2789267Z 
2026-01-05T01:34:14.2789369Z Using wrm_data_latest.csv to react Snail
2026-01-05T01:34:14.2789553Z 
2026-01-05T01:34:14.2789914Z The sample 'Snail' experienced errors during the reaction:
2026-01-05T01:34:14.2790390Z  * Error - (EQ6/path) The equilibrium calculation failed at the initial value
2026-01-05T01:34:14.2790754Z        of reaction progress.
2026-01-05T01:34:14.2790903Z 
2026-01-05T01:34:14.2791226Z Mass transfer results for sample 'Snail' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:34:14.2791652Z 
2026-01-05T01:34:14.2791735Z [OK] Reaction completed
2026-01-05T01:34:14.2791970Z [OK] misc_params is a DataFrame with 12 rows
2026-01-05T01:34:14.2792156Z 
2026-01-05T01:34:14.2792253Z ============================================================
2026-01-05T01:34:14.2792517Z TEST SUMMARY
2026-01-05T01:34:14.2792713Z ============================================================
2026-01-05T01:34:14.2792983Z [PASS] Bundled Executables
2026-01-05T01:34:14.2793218Z [PASS] Import and Basic Usage
2026-01-05T01:34:14.2793772Z [PASS] Download Latest data0.wrm
2026-01-05T01:34:14.2794029Z [PASS] EQPT Data0 to Data1 Conversion
2026-01-05T01:34:14.2794295Z [PASS] Simple Speciation (wrm database)
2026-01-05T01:34:14.2794561Z [PASS] Water-Rock Reaction
2026-01-05T01:34:14.2794801Z ============================================================
2026-01-05T01:34:14.2794989Z 
2026-01-05T01:34:14.2795207Z [PASS] All tests passed!
2026-01-05T01:34:14.4978349Z Post job cleanup.
2026-01-05T01:34:14.6636836Z Post job cleanup.
2026-01-05T01:34:14.7575834Z [command]/usr/bin/git version
2026-01-05T01:34:14.7613442Z git version 2.52.0
2026-01-05T01:34:14.7658103Z Temporarily overriding HOME='/home/runner/work/_temp/46b0fbc8-f9dc-4827-a416-f896dcfb6c50' before making global git config changes
2026-01-05T01:34:14.7659525Z Adding repository directory to the temporary git global config as a safe directory
2026-01-05T01:34:14.7664766Z [command]/usr/bin/git config --global --add safe.directory /home/runner/work/aqequil/aqequil
2026-01-05T01:34:14.7707923Z [command]/usr/bin/git config --local --name-only --get-regexp core\.sshCommand
2026-01-05T01:34:14.7741092Z [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' || :"
2026-01-05T01:34:14.7976684Z [command]/usr/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2026-01-05T01:34:14.8000953Z http.https://github.com/.extraheader
2026-01-05T01:34:14.8014359Z [command]/usr/bin/git config --local --unset-all http.https://github.com/.extraheader
2026-01-05T01:34:14.8048784Z [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' || :"
2026-01-05T01:34:14.8296593Z [command]/usr/bin/git config --local --name-only --get-regexp ^includeIf\.gitdir:
2026-01-05T01:34:14.8332779Z [command]/usr/bin/git submodule foreach --recursive git config --local --show-origin --name-only --get-regexp remote.origin.url
2026-01-05T01:34:14.8685701Z Cleaning up orphan processes
