﻿2026-01-05T01:34:04.5547350Z Current runner version: '2.330.0'
2026-01-05T01:34:04.5571180Z ##[group]Runner Image Provisioner
2026-01-05T01:34:04.5572000Z Hosted Compute Agent
2026-01-05T01:34:04.5572580Z Version: 20251211.462
2026-01-05T01:34:04.5573220Z Commit: 6cbad8c2bb55d58165063d031ccabf57e2d2db61
2026-01-05T01:34:04.5574010Z Build Date: 2025-12-11T16:28:49Z
2026-01-05T01:34:04.5574710Z Worker ID: {3c6bddc1-5578-4567-8422-528704560488}
2026-01-05T01:34:04.5575450Z ##[endgroup]
2026-01-05T01:34:04.5576000Z ##[group]Operating System
2026-01-05T01:34:04.5576600Z macOS
2026-01-05T01:34:04.5577070Z 15.7.3
2026-01-05T01:34:04.5577530Z 24G419
2026-01-05T01:34:04.5578000Z ##[endgroup]
2026-01-05T01:34:04.5578510Z ##[group]Runner Image
2026-01-05T01:34:04.5579190Z Image: macos-15
2026-01-05T01:34:04.5579730Z Version: 20251216.0081.1
2026-01-05T01:34:04.5581000Z Included Software: https://github.com/actions/runner-images/blob/macos-15/20251216.0081/images/macos/macos-15-Readme.md
2026-01-05T01:34:04.5582970Z Image Release: https://github.com/actions/runner-images/releases/tag/macos-15%2F20251216.0081
2026-01-05T01:34:04.5584140Z ##[endgroup]
2026-01-05T01:34:04.5587960Z ##[group]GITHUB_TOKEN Permissions
2026-01-05T01:34:04.5589870Z Actions: write
2026-01-05T01:34:04.5590440Z ArtifactMetadata: write
2026-01-05T01:34:04.5591030Z Attestations: write
2026-01-05T01:34:04.5591570Z Checks: write
2026-01-05T01:34:04.5592070Z Contents: write
2026-01-05T01:34:04.5592600Z Deployments: write
2026-01-05T01:34:04.5593150Z Discussions: write
2026-01-05T01:34:04.5593680Z Issues: write
2026-01-05T01:34:04.5594190Z Metadata: read
2026-01-05T01:34:04.5594700Z Models: read
2026-01-05T01:34:04.5595220Z Packages: write
2026-01-05T01:34:04.5595740Z Pages: write
2026-01-05T01:34:04.5596260Z PullRequests: write
2026-01-05T01:34:04.5596910Z RepositoryProjects: write
2026-01-05T01:34:04.5597540Z SecurityEvents: write
2026-01-05T01:34:04.5598110Z Statuses: write
2026-01-05T01:34:04.5598630Z ##[endgroup]
2026-01-05T01:34:04.5600860Z Secret source: Actions
2026-01-05T01:34:04.5601580Z Prepare workflow directory
2026-01-05T01:34:04.6015230Z Prepare all required actions
2026-01-05T01:34:04.6060520Z Getting action download info
2026-01-05T01:34:05.0028480Z Download action repository 'actions/checkout@v4' (SHA:34e114876b0b11c390a56381ad16ebd13914f8d5)
2026-01-05T01:34:05.2296830Z Download action repository 'actions/setup-python@v5' (SHA:a26af69be951a213d495a4c3e4e4022e16d87065)
2026-01-05T01:34:05.4479060Z Download action repository 'actions/download-artifact@v4' (SHA:d3f86a106a0bac45b974a628896c90dbdf5c8093)
2026-01-05T01:34:06.9290620Z Complete job name: Test wheels on macos-15-intel with Python 3.12
2026-01-05T01:34:07.0071940Z ##[group]Run actions/checkout@v4
2026-01-05T01:34:07.0073330Z with:
2026-01-05T01:34:07.0074020Z   repository: worm-portal/aqequil
2026-01-05T01:34:07.0075100Z   token: ***
2026-01-05T01:34:07.0075740Z   ssh-strict: true
2026-01-05T01:34:07.0076400Z   ssh-user: git
2026-01-05T01:34:07.0077070Z   persist-credentials: true
2026-01-05T01:34:07.0077820Z   clean: true
2026-01-05T01:34:07.0078600Z   sparse-checkout-cone-mode: true
2026-01-05T01:34:07.0079410Z   fetch-depth: 1
2026-01-05T01:34:07.0080060Z   fetch-tags: false
2026-01-05T01:34:07.0080730Z   show-progress: true
2026-01-05T01:34:07.0081410Z   lfs: false
2026-01-05T01:34:07.0082040Z   submodules: false
2026-01-05T01:34:07.0082740Z   set-safe-directory: true
2026-01-05T01:34:07.0083920Z ##[endgroup]
2026-01-05T01:34:07.4143990Z Syncing repository: worm-portal/aqequil
2026-01-05T01:34:07.4146710Z ##[group]Getting Git version info
2026-01-05T01:34:07.4148070Z Working directory is '/Users/runner/work/aqequil/aqequil'
2026-01-05T01:34:07.4149930Z [command]/usr/local/bin/git version
2026-01-05T01:34:07.4585850Z git version 2.50.1
2026-01-05T01:34:07.4623850Z ##[endgroup]
2026-01-05T01:34:07.4642520Z Copying '/Users/runner/.gitconfig' to '/Users/runner/work/_temp/f9624162-ffa9-4f1d-b6be-baae11220884/.gitconfig'
2026-01-05T01:34:07.4749300Z Temporarily overriding HOME='/Users/runner/work/_temp/f9624162-ffa9-4f1d-b6be-baae11220884' before making global git config changes
2026-01-05T01:34:07.4752910Z Adding repository directory to the temporary git global config as a safe directory
2026-01-05T01:34:07.4754690Z [command]/usr/local/bin/git config --global --add safe.directory /Users/runner/work/aqequil/aqequil
2026-01-05T01:34:07.5333150Z Deleting the contents of '/Users/runner/work/aqequil/aqequil'
2026-01-05T01:34:07.5384650Z ##[group]Initializing the repository
2026-01-05T01:34:07.5407500Z [command]/usr/local/bin/git init /Users/runner/work/aqequil/aqequil
2026-01-05T01:34:07.5705920Z hint: Using 'master' as the name for the initial branch. This default branch name
2026-01-05T01:34:07.5707950Z hint: is subject to change. To configure the initial branch name to use in all
2026-01-05T01:34:07.5710080Z hint: of your new repositories, which will suppress this warning, call:
2026-01-05T01:34:07.5711300Z hint:
2026-01-05T01:34:07.5712140Z hint: 	git config --global init.defaultBranch <name>
2026-01-05T01:34:07.5713160Z hint:
2026-01-05T01:34:07.5714230Z hint: Names commonly chosen instead of 'master' are 'main', 'trunk' and
2026-01-05T01:34:07.5715690Z hint: 'development'. The just-created branch can be renamed via this command:
2026-01-05T01:34:07.5716880Z hint:
2026-01-05T01:34:07.5717540Z hint: 	git branch -m <name>
2026-01-05T01:34:07.5718290Z hint:
2026-01-05T01:34:07.5719270Z hint: Disable this message with "git config set advice.defaultBranchName false"
2026-01-05T01:34:07.5720870Z Initialized empty Git repository in /Users/runner/work/aqequil/aqequil/.git/
2026-01-05T01:34:07.5723520Z [command]/usr/local/bin/git remote add origin https://github.com/worm-portal/aqequil
2026-01-05T01:34:07.5833760Z ##[endgroup]
2026-01-05T01:34:07.5835870Z ##[group]Disabling automatic garbage collection
2026-01-05T01:34:07.5838810Z [command]/usr/local/bin/git config --local gc.auto 0
2026-01-05T01:34:07.5932350Z ##[endgroup]
2026-01-05T01:34:07.5933530Z ##[group]Setting up auth
2026-01-05T01:34:07.5940580Z [command]/usr/local/bin/git config --local --name-only --get-regexp core\.sshCommand
2026-01-05T01:34:07.6031230Z [command]/usr/local/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'core\.sshCommand' && git config --local --unset-all 'core.sshCommand' || :"
2026-01-05T01:34:07.7541220Z [command]/usr/local/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2026-01-05T01:34:07.7699590Z [command]/usr/local/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' || :"
2026-01-05T01:34:08.0362130Z [command]/usr/local/bin/git config --local --name-only --get-regexp ^includeIf\.gitdir:
2026-01-05T01:34:08.0446940Z [command]/usr/local/bin/git submodule foreach --recursive git config --local --show-origin --name-only --get-regexp remote.origin.url
2026-01-05T01:34:08.2016480Z [command]/usr/local/bin/git config --local http.https://github.com/.extraheader AUTHORIZATION: basic ***
2026-01-05T01:34:08.2132880Z ##[endgroup]
2026-01-05T01:34:08.2134030Z ##[group]Fetching the repository
2026-01-05T01:34:08.2142230Z [command]/usr/local/bin/git -c protocol.version=2 fetch --no-tags --prune --no-recurse-submodules --depth=1 origin +0fba8641708a9a29f5cf75d5e1aa5af56402a902:refs/tags/v1.0.1
2026-01-05T01:34:09.1413010Z From https://github.com/worm-portal/aqequil
2026-01-05T01:34:09.1415320Z  * [new ref]         0fba8641708a9a29f5cf75d5e1aa5af56402a902 -> v1.0.1
2026-01-05T01:34:09.1521650Z ##[endgroup]
2026-01-05T01:34:09.1523530Z ##[group]Determining the checkout info
2026-01-05T01:34:09.1525440Z ##[endgroup]
2026-01-05T01:34:09.1526720Z [command]/usr/local/bin/git sparse-checkout disable
2026-01-05T01:34:09.1651130Z [command]/usr/local/bin/git config --local --unset-all extensions.worktreeConfig
2026-01-05T01:34:09.1751640Z ##[group]Checking out the ref
2026-01-05T01:34:09.1755240Z [command]/usr/local/bin/git checkout --progress --force refs/tags/v1.0.1
2026-01-05T01:34:09.6233520Z HEAD is now at 0fba864 Add automatic versioning from git tags using setuptools_scm
2026-01-05T01:34:09.6262150Z ##[endgroup]
2026-01-05T01:34:09.6450850Z [command]/usr/local/bin/git log -1 --format=%H
2026-01-05T01:34:09.6520120Z 0fba8641708a9a29f5cf75d5e1aa5af56402a902
2026-01-05T01:34:09.7104070Z ##[group]Run actions/setup-python@v5
2026-01-05T01:34:09.7107200Z with:
2026-01-05T01:34:09.7108640Z   python-version: 3.12
2026-01-05T01:34:09.7110320Z   check-latest: false
2026-01-05T01:34:09.7112550Z   token: ***
2026-01-05T01:34:09.7114060Z   update-environment: true
2026-01-05T01:34:09.7115870Z   allow-prereleases: false
2026-01-05T01:34:09.7117650Z   freethreaded: false
2026-01-05T01:34:09.7119250Z ##[endgroup]
2026-01-05T01:34:10.0336650Z ##[group]Installed versions
2026-01-05T01:34:10.0667330Z Successfully set up CPython (3.12.10)
2026-01-05T01:34:10.0672950Z ##[endgroup]
2026-01-05T01:34:10.1019740Z ##[group]Run actions/download-artifact@v4
2026-01-05T01:34:10.1021920Z with:
2026-01-05T01:34:10.1023260Z   name: wheels-macos-15-intel
2026-01-05T01:34:10.1025000Z   path: wheelhouse
2026-01-05T01:34:10.1026490Z   merge-multiple: false
2026-01-05T01:34:10.1028210Z   repository: worm-portal/aqequil
2026-01-05T01:34:10.1029920Z   run-id: 20702070857
2026-01-05T01:34:10.1031270Z env:
2026-01-05T01:34:10.1033150Z   pythonLocation: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:10.1036620Z   PKG_CONFIG_PATH: /Users/runner/hostedtoolcache/Python/3.12.10/x64/lib/pkgconfig
2026-01-05T01:34:10.1040090Z   Python_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:10.1043230Z   Python2_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:10.1046420Z   Python3_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:10.1048970Z ##[endgroup]
2026-01-05T01:34:10.3617250Z Downloading single artifact
2026-01-05T01:34:10.6488620Z Preparing to download the following artifacts:
2026-01-05T01:34:10.6498620Z - wheels-macos-15-intel (ID: 5019973661, Size: 26148667, Expected Digest: sha256:40ecc783ea82ded74149a05ecf5b655670ce481fd76ab07eaf1d605ad84d28cb)
2026-01-05T01:34:10.7930870Z Redirecting to blob download url: https://productionresultssa18.blob.core.windows.net/actions-results/26a74c06-72e1-4403-8f14-91bf0d49fcbc/workflow-job-run-6f850a1f-ea41-5e26-a818-bfd80f2283be/artifacts/4eca8f0ccca97b165c4a1ab157d96140287a95618c1d8fd484d0f307b4615528.zip
2026-01-05T01:34:10.7962510Z Starting download of artifact to: /Users/runner/work/aqequil/aqequil/wheelhouse
2026-01-05T01:34:10.9685970Z (node:9554) [DEP0005] DeprecationWarning: Buffer() is deprecated due to security and usability issues. Please use the Buffer.alloc(), Buffer.allocUnsafe(), or Buffer.from() methods instead.
2026-01-05T01:34:10.9765550Z (Use `node --trace-deprecation ...` to show where the warning was created)
2026-01-05T01:34:12.1611400Z SHA256 digest of downloaded artifact is 40ecc783ea82ded74149a05ecf5b655670ce481fd76ab07eaf1d605ad84d28cb
2026-01-05T01:34:12.1634030Z Artifact download completed successfully.
2026-01-05T01:34:12.1636140Z Total of 1 artifact(s) downloaded
2026-01-05T01:34:12.1665430Z Download artifact has finished successfully
2026-01-05T01:34:12.1770680Z ##[group]Run PYVER=$(echo "3.12" | tr -d '.')
2026-01-05T01:34:12.1771460Z [36;1mPYVER=$(echo "3.12" | tr -d '.')[0m
2026-01-05T01:34:12.1772150Z [36;1mpython -m pip install wheelhouse/aqequil-*-cp${PYVER}-*.whl[0m
2026-01-05T01:34:12.1862370Z shell: /bin/bash --noprofile --norc -e -o pipefail {0}
2026-01-05T01:34:12.1863320Z env:
2026-01-05T01:34:12.1863930Z   pythonLocation: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:12.1864900Z   PKG_CONFIG_PATH: /Users/runner/hostedtoolcache/Python/3.12.10/x64/lib/pkgconfig
2026-01-05T01:34:12.1865910Z   Python_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:12.1866960Z   Python2_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:12.1867980Z   Python3_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:12.1869910Z ##[endgroup]
2026-01-05T01:34:14.0868600Z Processing ./wheelhouse/aqequil-1.0.2.dev0+g0fba86417.d20260105-cp312-cp312-macosx_15_0_x86_64.whl
2026-01-05T01:34:14.5076400Z Collecting pandas (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:14.6161130Z   Downloading pandas-2.3.3-cp312-cp312-macosx_10_13_x86_64.whl.metadata (91 kB)
2026-01-05T01:34:15.0844590Z Collecting numpy (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.1005680Z   Downloading numpy-2.4.0-cp312-cp312-macosx_14_0_x86_64.whl.metadata (6.6 kB)
2026-01-05T01:34:15.4490880Z Collecting matplotlib (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.4573890Z   Downloading matplotlib-3.10.8-cp312-cp312-macosx_10_13_x86_64.whl.metadata (52 kB)
2026-01-05T01:34:15.5701080Z Collecting plotly (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.5867780Z   Downloading plotly-6.5.0-py3-none-any.whl.metadata (8.5 kB)
2026-01-05T01:34:15.6897370Z Collecting ipython (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.7058860Z   Downloading ipython-9.8.0-py3-none-any.whl.metadata (4.5 kB)
2026-01-05T01:34:15.7501380Z Collecting chemparse (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.7625700Z   Downloading chemparse-0.3.2-py3-none-any.whl.metadata (1.7 kB)
2026-01-05T01:34:15.8037020Z Collecting dill (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.8225560Z   Downloading dill-0.4.0-py3-none-any.whl.metadata (10 kB)
2026-01-05T01:34:15.8616610Z Collecting periodictable (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.9146940Z   Downloading periodictable-2.0.2-py3-none-any.whl.metadata (5.4 kB)
2026-01-05T01:34:15.9713520Z Collecting natsort (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:15.9873330Z   Downloading natsort-8.4.0-py3-none-any.whl.metadata (21 kB)
2026-01-05T01:34:16.0280460Z Collecting roman (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.0444040Z   Downloading roman-5.2-py3-none-any.whl.metadata (4.3 kB)
2026-01-05T01:34:16.1151720Z Collecting ipywidgets (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.1308880Z   Downloading ipywidgets-8.1.8-py3-none-any.whl.metadata (2.4 kB)
2026-01-05T01:34:16.1645870Z Collecting wormutils (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.1817420Z   Downloading wormutils-0.2.0-py3-none-any.whl.metadata (723 bytes)
2026-01-05T01:34:16.2440840Z Collecting pychnosz (from aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.2606800Z   Downloading pychnosz-1.1.12-cp312-cp312-macosx_15_0_x86_64.whl.metadata (8.2 kB)
2026-01-05T01:34:16.3068510Z Collecting decorator>=4.3.2 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.3238050Z   Downloading decorator-5.2.1-py3-none-any.whl.metadata (3.9 kB)
2026-01-05T01:34:16.3586130Z Collecting ipython-pygments-lexers>=1.0.0 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.3738970Z   Downloading ipython_pygments_lexers-1.1.1-py3-none-any.whl.metadata (1.1 kB)
2026-01-05T01:34:16.4090470Z Collecting jedi>=0.18.1 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.4298540Z   Downloading jedi-0.19.2-py2.py3-none-any.whl.metadata (22 kB)
2026-01-05T01:34:16.4696600Z Collecting matplotlib-inline>=0.1.5 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.4854460Z   Downloading matplotlib_inline-0.2.1-py3-none-any.whl.metadata (2.3 kB)
2026-01-05T01:34:16.5185660Z Collecting pexpect>4.3 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.5356140Z   Downloading pexpect-4.9.0-py2.py3-none-any.whl.metadata (2.5 kB)
2026-01-05T01:34:16.5999050Z Collecting prompt_toolkit<3.1.0,>=3.0.41 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.6156330Z   Downloading prompt_toolkit-3.0.52-py3-none-any.whl.metadata (6.4 kB)
2026-01-05T01:34:16.6634110Z Collecting pygments>=2.11.0 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.6790260Z   Downloading pygments-2.19.2-py3-none-any.whl.metadata (2.5 kB)
2026-01-05T01:34:16.7116460Z Collecting stack_data>=0.6.0 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.7271330Z   Downloading stack_data-0.6.3-py3-none-any.whl.metadata (18 kB)
2026-01-05T01:34:16.7736580Z Collecting traitlets>=5.13.0 (from ipython->aqequil==1.0.2.dev0+g0fba86417.d20260105)
2026-01-05T01:34:16.7895130Z   Downloading traitlets-5.14.3-py3-none-any.whl.metadata (10 kB)
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2026-01-05T01:34:55.2941300Z Successfully installed aqequil-1.0.2.dev0+g0fba86417.d20260105 asttokens-3.0.1 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
2026-01-05T01:34:55.9088560Z ##[group]Run cd "$RUNNER_TEMP"
2026-01-05T01:34:55.9089620Z [36;1mcd "$RUNNER_TEMP"[0m
2026-01-05T01:34:55.9090500Z [36;1mecho "Checking architecture of bundled executables..."[0m
2026-01-05T01:34:55.9093220Z [36;1mpython -c "import aqequil; from aqequil.AqSpeciation import _get_bundled_exe_path; import os; bin_path = _get_bundled_exe_path(); print(f'Binary path: {bin_path}'); import subprocess; result = subprocess.run(['file', os.path.join(bin_path, 'eqpt')], capture_output=True, text=True); print(result.stdout)"[0m
2026-01-05T01:34:55.9180970Z shell: /bin/bash --noprofile --norc -e -o pipefail {0}
2026-01-05T01:34:55.9181610Z env:
2026-01-05T01:34:55.9182210Z   pythonLocation: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:55.9183270Z   PKG_CONFIG_PATH: /Users/runner/hostedtoolcache/Python/3.12.10/x64/lib/pkgconfig
2026-01-05T01:34:55.9190370Z   Python_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:55.9191490Z   Python2_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:55.9192430Z   Python3_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:34:55.9193200Z ##[endgroup]
2026-01-05T01:34:55.9408870Z Checking architecture of bundled executables...
2026-01-05T01:35:05.0815380Z Matplotlib is building the font cache; this may take a moment.
2026-01-05T01:35:28.6614200Z Binary path: /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/bin
2026-01-05T01:35:28.6616180Z /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/bin/eqpt: Mach-O 64-bit executable x86_64
2026-01-05T01:35:28.6617110Z 
2026-01-05T01:35:28.9304020Z ##[group]Run cp "$GITHUB_WORKSPACE/test_integration.py" "$RUNNER_TEMP/"
2026-01-05T01:35:28.9305940Z [36;1mcp "$GITHUB_WORKSPACE/test_integration.py" "$RUNNER_TEMP/"[0m
2026-01-05T01:35:28.9306620Z [36;1mcd "$RUNNER_TEMP"[0m
2026-01-05T01:35:28.9307070Z [36;1mpython test_integration.py[0m
2026-01-05T01:35:28.9371660Z shell: /bin/bash --noprofile --norc -e -o pipefail {0}
2026-01-05T01:35:28.9372210Z env:
2026-01-05T01:35:28.9372720Z   pythonLocation: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:35:28.9373600Z   PKG_CONFIG_PATH: /Users/runner/hostedtoolcache/Python/3.12.10/x64/lib/pkgconfig
2026-01-05T01:35:28.9374470Z   Python_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:35:28.9375260Z   Python2_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:35:28.9376060Z   Python3_ROOT_DIR: /Users/runner/hostedtoolcache/Python/3.12.10/x64
2026-01-05T01:35:28.9376690Z ##[endgroup]
2026-01-05T01:36:08.7236040Z 
2026-01-05T01:36:08.7236670Z ============================================================
2026-01-05T01:36:08.7239350Z AQEQUIL INTEGRATION TEST SUITE
2026-01-05T01:36:08.7240450Z ============================================================
2026-01-05T01:36:08.7240960Z Python: 3.12.10
2026-01-05T01:36:08.7241320Z Platform: darwin
2026-01-05T01:36:08.7259990Z Architecture: x86_64
2026-01-05T01:36:08.7260460Z ============================================================
2026-01-05T01:36:08.7261270Z ============================================================
2026-01-05T01:36:08.7261870Z Test 1: Checking for bundled EQ3/6 executables
2026-01-05T01:36:08.7262480Z ============================================================
2026-01-05T01:36:08.7263500Z [OK] Found bundled executables at: /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/bin
2026-01-05T01:36:08.7264540Z   [OK] eq3nr (1.08 MB)
2026-01-05T01:36:08.7264920Z   [OK] eq6 (1.88 MB)
2026-01-05T01:36:08.7265260Z   [OK] eqpt (0.64 MB)
2026-01-05T01:36:08.7265510Z 
2026-01-05T01:36:08.7265680Z ============================================================
2026-01-05T01:36:08.7266230Z Test 2: Testing aqequil import and basic usage
2026-01-05T01:36:08.7266780Z ============================================================
2026-01-05T01:36:08.7267270Z [OK] Successfully imported aqequil
2026-01-05T01:36:08.7268390Z [OK] Found test data at: /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv
2026-01-05T01:36:08.7269370Z 
2026-01-05T01:36:08.7269570Z ============================================================
2026-01-05T01:36:08.7270260Z Test 3: Downloading latest data0.wrm from WORM-db
2026-01-05T01:36:08.7270840Z ============================================================
2026-01-05T01:36:08.7271750Z Downloading data0.wrm from https://raw.githubusercontent.com/worm-portal/WORM-db/master/data0.wrm...
2026-01-05T01:36:08.7272640Z [OK] Downloaded data0.wrm (573.8 KB)
2026-01-05T01:36:08.7273180Z [OK] Copied data0.wrm to test_data (replaced existing)
2026-01-05T01:36:08.7273820Z [OK] Copied data0.wrm to databases (replaced existing)
2026-01-05T01:36:08.7274210Z 
2026-01-05T01:36:08.7274400Z ============================================================
2026-01-05T01:36:08.7274940Z Test 4: Testing runeqpt (data0 to data1 conversion)
2026-01-05T01:36:08.7275500Z ============================================================
2026-01-05T01:36:08.7276230Z [INFO] Working directory: /var/folders/6k/3_2ylbdd4rl8w3kbs55s3kk80000gn/T/tmpv7dzd68e
2026-01-05T01:36:08.7277870Z [OK] Copied data0.wrm to working directory
2026-01-05T01:36:08.7278360Z Running EQPT on data0.wrm...
2026-01-05T01:36:08.7278780Z [OK] EQPT completed
2026-01-05T01:36:08.7279170Z [OK] data1.wrm created (0.36 MB)
2026-01-05T01:36:08.7279720Z [OK] Copied data1.wrm to bundled databases (replaced existing)
2026-01-05T01:36:08.7280190Z 
2026-01-05T01:36:08.7280360Z ============================================================
2026-01-05T01:36:08.7282380Z Test 5: Testing simple speciation (wrm database)
2026-01-05T01:36:08.7283230Z ============================================================
2026-01-05T01:36:08.7284420Z Running speciation on /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv...
2026-01-05T01:36:08.7285860Z [INFO] Working directory: /var/folders/6k/3_2ylbdd4rl8w3kbs55s3kk80000gn/T/tmp8y5id139
2026-01-05T01:36:08.7286650Z [OK] Copied data0.wrm to working directory
2026-01-05T01:36:08.7287150Z Running EQPT to create data1.wrm...
2026-01-05T01:36:08.7287650Z [OK] EQPT completed, data1.wrm created
2026-01-05T01:36:08.7288170Z [OK] AqEquil instance created with wrm database
2026-01-05T01:36:08.7289350Z 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.
2026-01-05T01:36:08.7290820Z No 'charge_balance_on' column found in input file. Defaulting to no charge balancing for all samples.
2026-01-05T01:36:08.7292210Z Warning: no 'logfO2' column found. Attempting to find a column for aqueous O2 to estimate logfO2 at sample temperature and pressure...
2026-01-05T01:36:08.7293250Z Using wrm to speciate Bison Pool
2026-01-05T01:36:08.7293740Z Using wrm to speciate Spray Geyser Source
2026-01-05T01:36:08.7294800Z Warning: non-numeric aqueous O2 value in sample Crater Hills Geyser. Resorting to using Log fO2 (log bars) with a value of -6
2026-01-05T01:36:08.7295870Z Using wrm to speciate Crater Hills Geyser
2026-01-05T01:36:08.7296390Z Using wrm to speciate Ambergris
2026-01-05T01:36:08.7296830Z Using wrm to speciate MLS Source
2026-01-05T01:36:08.7297280Z Using wrm to speciate Gas Crack
2026-01-05T01:36:08.7297720Z Using wrm to speciate Snail
2026-01-05T01:36:08.7298110Z Finished!
2026-01-05T01:36:08.7298460Z [OK] Speciation completed
2026-01-05T01:36:08.7298900Z [OK] aq_distribution is a DataFrame with 81 rows
2026-01-05T01:36:08.7299260Z 
2026-01-05T01:36:08.7299450Z ============================================================
2026-01-05T01:36:08.7299940Z Test 6: Testing water-rock reaction
2026-01-05T01:36:08.7300410Z ============================================================
2026-01-05T01:36:08.7301570Z Running speciation on /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/aqequil/test_data/input_example_wrm.csv...
2026-01-05T01:36:08.7302950Z [INFO] Working directory: /var/folders/6k/3_2ylbdd4rl8w3kbs55s3kk80000gn/T/tmp57dhtkjk
2026-01-05T01:36:08.7303890Z [OK] Copied wrm_data_latest.csv to bundled databases (replaced existing)
2026-01-05T01:36:08.7304710Z [OK] Copied elements.csv to bundled databases (replaced existing)
2026-01-05T01:36:08.7305630Z [OK] Copied solid_solutions.csv to bundled databases (replaced existing)
2026-01-05T01:36:08.7306690Z [OK] Copied wrm_data_logk.csv to bundled databases (replaced existing)
2026-01-05T01:36:08.7307480Z [OK] Copied wrm_data_logk_s.csv to bundled databases (replaced existing)
2026-01-05T01:36:08.7308790Z 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.
2026-01-05T01:36:08.7310050Z Getting wrm_data_latest.csv ready. This will take a moment...
2026-01-05T01:36:08.7311010Z No 'charge_balance_on' column found in input file. Defaulting to no charge balancing for all samples.
2026-01-05T01:36:08.7312280Z Warning: a column for Pressure was not found in the sample input file. Defaulting to water saturation pressure...
2026-01-05T01:36:08.7313750Z Warning: no 'logfO2' column found. Attempting to find a column for aqueous O2 to estimate logfO2 at sample temperature and pressure...
2026-01-05T01:36:08.7315350Z Using wrm_data_latest.csv to speciate Bison Pool
2026-01-05T01:36:08.7315970Z Using wrm_data_latest.csv to speciate Spray Geyser Source
2026-01-05T01:36:08.7317060Z Warning: non-numeric aqueous O2 value in sample Crater Hills Geyser. Resorting to using Log fO2 (log bars) with a value of -6
2026-01-05T01:36:08.7318450Z Using wrm_data_latest.csv to speciate Crater Hills Geyser
2026-01-05T01:36:08.7319130Z Using wrm_data_latest.csv to speciate Ambergris
2026-01-05T01:36:08.7319700Z Using wrm_data_latest.csv to speciate MLS Source
2026-01-05T01:36:08.7320280Z Using wrm_data_latest.csv to speciate Gas Crack
2026-01-05T01:36:08.7320870Z Using wrm_data_latest.csv to speciate Snail
2026-01-05T01:36:08.7321320Z Finished!
2026-01-05T01:36:08.7321670Z [OK] Initial speciation completed
2026-01-05T01:36:08.7322140Z [OK] Reaction prepared
2026-01-05T01:36:08.7322530Z Running water-rock reaction...
2026-01-05T01:36:08.7323020Z Using wrm_data_latest.csv to react Bison.Pool
2026-01-05T01:36:08.7323690Z 
2026-01-05T01:36:08.7324090Z The sample 'Bison Pool' experienced errors during the reaction:
2026-01-05T01:36:08.7324860Z  * Error - (EQ6/intmtb) A mass balance is defined on the input
2026-01-05T01:36:08.7325560Z        file for NH4+ (Aqueous solution), but this species isn't in the
2026-01-05T01:36:08.7326370Z        currently active basis set. Either it isn't on the current data file
2026-01-05T01:36:08.7327150Z        or it has been suppressed as by an nxmod or iopt(15) option.
2026-01-05T01:36:08.7327590Z 
2026-01-05T01:36:08.7328230Z Mass transfer results for sample 'Bison Pool' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:36:08.7329030Z 
2026-01-05T01:36:08.7329270Z Using wrm_data_latest.csv to react Spray.Geyser.Source
2026-01-05T01:36:08.7329700Z 
2026-01-05T01:36:08.7330020Z The sample 'Spray Geyser Source' experienced errors during the reaction:
2026-01-05T01:36:08.7330800Z  * Error - (EQ6/intrct) The reactant antigorite isn't among
2026-01-05T01:36:08.7331380Z        the loaded minerals.
2026-01-05T01:36:08.7331630Z 
2026-01-05T01:36:08.7332310Z Mass transfer results for sample 'Spray Geyser Source' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:36:08.7333190Z 
2026-01-05T01:36:08.7333440Z Using wrm_data_latest.csv to react Crater.Hills.Geyser
2026-01-05T01:36:08.7334050Z Using wrm_data_latest.csv to react Ambergris
2026-01-05T01:36:08.7334590Z Using wrm_data_latest.csv to react MLS.Source
2026-01-05T01:36:08.7335130Z Using wrm_data_latest.csv to react Gas.Crack
2026-01-05T01:36:08.7335500Z 
2026-01-05T01:36:08.7335770Z The sample 'Gas Crack' experienced errors during the reaction:
2026-01-05T01:36:08.7336560Z  * Error - (EQ6/path) The equilibrium calculation failed at the initial value
2026-01-05T01:36:08.7337230Z        of reaction progress.
2026-01-05T01:36:08.7337520Z 
2026-01-05T01:36:08.7338110Z Mass transfer results for sample 'Gas Crack' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:36:08.7338930Z 
2026-01-05T01:36:08.7339100Z Using wrm_data_latest.csv to react Snail
2026-01-05T01:36:08.7339420Z 
2026-01-05T01:36:08.7339710Z The sample 'Snail' experienced errors during the reaction:
2026-01-05T01:36:08.7340570Z  * Error - (EQ6/path) The equilibrium calculation failed at the initial value
2026-01-05T01:36:08.7341300Z        of reaction progress.
2026-01-05T01:36:08.7341560Z 
2026-01-05T01:36:08.7342190Z Mass transfer results for sample 'Snail' could not be saved because the calculation did not finish due to error(s).
2026-01-05T01:36:08.7342960Z 
2026-01-05T01:36:08.7343130Z [OK] Reaction completed
2026-01-05T01:36:08.7343550Z [OK] misc_params is a DataFrame with 12 rows
2026-01-05T01:36:08.7343910Z 
2026-01-05T01:36:08.7344080Z ============================================================
2026-01-05T01:36:08.7344570Z TEST SUMMARY
2026-01-05T01:36:08.7344910Z ============================================================
2026-01-05T01:36:08.7345840Z [PASS] Bundled Executables
2026-01-05T01:36:08.7346270Z [PASS] Import and Basic Usage
2026-01-05T01:36:08.7346710Z [PASS] Download Latest data0.wrm
2026-01-05T01:36:08.7347160Z [PASS] EQPT Data0 to Data1 Conversion
2026-01-05T01:36:08.7347650Z [PASS] Simple Speciation (wrm database)
2026-01-05T01:36:08.7348140Z [PASS] Water-Rock Reaction
2026-01-05T01:36:08.7348800Z ============================================================
2026-01-05T01:36:08.7349280Z 
2026-01-05T01:36:08.7349610Z [PASS] All tests passed!
2026-01-05T01:36:08.9954130Z Post job cleanup.
2026-01-05T01:36:09.2053750Z Post job cleanup.
2026-01-05T01:36:09.3345950Z [command]/usr/local/bin/git version
2026-01-05T01:36:09.3439140Z git version 2.50.1
2026-01-05T01:36:09.3478850Z Copying '/Users/runner/.gitconfig' to '/Users/runner/work/_temp/b6515593-199b-49bc-afb9-a4a63df0b9ba/.gitconfig'
2026-01-05T01:36:09.3494360Z Temporarily overriding HOME='/Users/runner/work/_temp/b6515593-199b-49bc-afb9-a4a63df0b9ba' before making global git config changes
2026-01-05T01:36:09.3495780Z Adding repository directory to the temporary git global config as a safe directory
2026-01-05T01:36:09.3506600Z [command]/usr/local/bin/git config --global --add safe.directory /Users/runner/work/aqequil/aqequil
2026-01-05T01:36:09.3607420Z [command]/usr/local/bin/git config --local --name-only --get-regexp core\.sshCommand
2026-01-05T01:36:09.3706360Z [command]/usr/local/bin/git submodule foreach --recursive sh -c "git config --local --name-only --get-regexp 'core\.sshCommand' && git config --local --unset-all 'core.sshCommand' || :"
2026-01-05T01:36:09.4878930Z [command]/usr/local/bin/git config --local --name-only --get-regexp http\.https\:\/\/github\.com\/\.extraheader
2026-01-05T01:36:09.4958910Z http.https://github.com/.extraheader
2026-01-05T01:36:09.4974160Z [command]/usr/local/bin/git config --local --unset-all http.https://github.com/.extraheader
2026-01-05T01:36:09.5075530Z [command]/usr/local/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' || :"
2026-01-05T01:36:09.6417560Z [command]/usr/local/bin/git config --local --name-only --get-regexp ^includeIf\.gitdir:
2026-01-05T01:36:09.6523120Z [command]/usr/local/bin/git submodule foreach --recursive git config --local --show-origin --name-only --get-regexp remote.origin.url
2026-01-05T01:36:09.7956300Z Cleaning up orphan processes
