Added new notebook, updated python files, added environment #82
vincent-noelbuild_binaries.yml
on: push
Matrix: macos_step0a
Matrix: macos_step0b
Matrix: ubuntu
Matrix: windows
Matrix: macos_step1
Annotations
53 errors and 20 warnings
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macos_step0a (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_M...
The configuration 'macos-13-us-default' is not supported
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macos_step0a (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
The configuration 'macos-13-us-default' is not supported
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ubuntu (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion, inva...
Process completed with exit code 2.
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ubuntu (episode, episode-sample, PhysiCell Episode, project)
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (rules, rules-sample, PhysiCell Rules, project)
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_L...
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_L...
Process completed with exit code 2.
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ubuntu (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS ...
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS ...
Process completed with exit code 2.
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ubuntu (physimess, physimess-sample, PhysiMeSS, project)
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (physimess, physimess-sample, PhysiMeSS, project)
Process completed with exit code 2.
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ubuntu (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICELL_CPP=...
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICELL_CPP=...
Process completed with exit code 2.
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ubuntu (template, template, PhysiCell Template, project)
The strategy configuration was canceled because "ubuntu.physiboss-tutorial-invasi" failed
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ubuntu (template, template, PhysiCell Template, project)
The operation was canceled.
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macos_step0b (template, template, PhysiCell Template, project)
Process completed with exit code 2.
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macos_step0b (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICEL...
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (rules, rules-sample, PhysiCell Rules, project)
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (physimess, physimess-sample, PhysiMeSS, project)
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (episode, episode-sample, PhysiCell Episode, project)
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
The operation was canceled.
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macos_step0b (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_M...
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_M...
The operation was canceled.
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macos_step0a (episode, episode-sample, PhysiCell Episode, project)
The configuration 'macos-13-us-default' is not supported
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macos_step0b (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_...
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_...
The operation was canceled.
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macos_step0b (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion...
The strategy configuration was canceled because "macos_step0b.template_template_PhysiCe" failed
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macos_step0b (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion...
The operation was canceled.
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macos_step0a (template, template, PhysiCell Template, project)
The configuration 'macos-13-us-default' is not supported
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macos_step0a (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion...
The configuration 'macos-13-us-default' is not supported
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macos_step0a (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICEL...
The configuration 'macos-13-us-default' is not supported
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macos_step0a (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_...
The configuration 'macos-13-us-default' is not supported
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macos_step0a (physimess, physimess-sample, PhysiMeSS, project)
The configuration 'macos-13-us-default' is not supported
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macos_step0a (rules, rules-sample, PhysiCell Rules, project)
The configuration 'macos-13-us-default' is not supported
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windows (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICELL_CPP...
Process completed with exit code 2.
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windows (rules, rules-sample, PhysiCell Rules, project)
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (rules, rules-sample, PhysiCell Rules, project)
Process completed with exit code 2.
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windows (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_...
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_...
Process completed with exit code 2.
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windows (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS...
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion, inv...
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS...
Process completed with exit code 2.
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windows (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion, inv...
Process completed with exit code 2.
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windows (episode, episode-sample, PhysiCell Episode, project)
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (episode, episode-sample, PhysiCell Episode, project)
Process completed with exit code 2.
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windows (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
Process completed with exit code 2.
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windows (physimess, physimess-sample, PhysiMeSS, project)
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (physimess, physimess-sample, PhysiMeSS, project)
Process completed with exit code 2.
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windows (template, template, PhysiCell Template, project)
The strategy configuration was canceled because "windows.template_BM_template_BM_P" failed
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windows (template, template, PhysiCell Template, project)
Process completed with exit code 2.
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ubuntu (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion, inva...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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ubuntu (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_L...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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ubuntu (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS ...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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ubuntu (physimess, physimess-sample, PhysiMeSS, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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ubuntu (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICELL_CPP=...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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ubuntu (template, template, PhysiCell Template, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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macos_step0b (template, template, PhysiCell Template, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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macos_step0b (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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macos_step0b (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_M...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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macos_step0b (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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macos_step0b (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (template_BM, template_BM, PhysiBoSS Template, project, make Compile_MaBoSS PHYSICELL_CPP...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (rules, rules-sample, PhysiCell Rules, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (physiboss-cell-lines, physiboss-cell-lines-sample, PhysiBoSS Cell Lines, PhysiBoSS_Cell_...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (physiboss-tutorial, physiboss-tutorial, PhysiBoSS tutorial, project, make Compile_MaBoSS...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (physiboss-tutorial-invasion, physiboss-tutorial-invasion, PhysiBoSS Cancer Invasion, inv...
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (episode, episode-sample, PhysiCell Episode, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (interaction, interaction-sample, PhysiCell Interaction, interaction_demo)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (physimess, physimess-sample, PhysiMeSS, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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windows (template, template, PhysiCell Template, project)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, msys2/setup-msys2@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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