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Relicense OmicsANG under the MIT License (#2)
Replace the PolyForm Noncommercial License 1.0.0 with MIT across the project: LICENSE text, the SPDX header on all 60 source files, and the `license` expression in pyproject (which becomes License-Expression: MIT in built distributions). Relicensing is done by the sole copyright holder; every file carried a single SPDX-FileCopyrightText and the history has a single author, so there are no third-party contributions to reconcile. Remove COMMERCIAL-LICENSING.md. It existed to sell the commercial rights PolyForm withheld; MIT grants those rights to everyone, so keeping the document would contradict LICENSE rather than merely age badly. Its entries are dropped from MANIFEST.in and the public-release gate. Vendored browser components (xterm.js, xterm-addon-fit) keep their own licenses and notices -- they were never ours to relicense, and THIRD_PARTY_NOTICES.md still governs them. The release gate's negative fixture used license = "MIT" precisely because MIT was the *wrong* answer under PolyForm; with MIT now expected it no longer triggered license-metadata-mismatch, so it moves to Apache-2.0 to keep asserting that blocker. Also register docs/agent-sandbox.md as a public document so the gate and manifest cover it. Co-authored-by: Claude Opus 4.8 <noreply@anthropic.com>
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‎.github/dependabot.yml‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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version: 2
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updates:
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- package-ecosystem: pip

‎.github/workflows/ci.yml‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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name: CI
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on:

‎COMMERCIAL-LICENSING.md‎

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‎LICENSE‎

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# PolyForm Noncommercial License 1.0.0
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<https://polyformproject.org/licenses/noncommercial/1.0.0>
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## Acceptance
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In order to get any license under these terms, you must agree
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to them as both strict obligations and conditions to all
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your licenses.
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## Copyright License
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The licensor grants you a copyright license for the
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software to do everything you might do with the software
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that would otherwise infringe the licensor's copyright
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in it for any permitted purpose. However, you may
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only distribute the software according to [Distribution
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License](#distribution-license) and make changes or new works
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based on the software according to [Changes and New Works
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License](#changes-and-new-works-license).
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## Distribution License
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The licensor grants you an additional copyright license
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to distribute copies of the software. Your license
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to distribute covers distributing the software with
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changes and new works permitted by [Changes and New Works
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License](#changes-and-new-works-license).
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## Notices
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You must ensure that anyone who gets a copy of any part of
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the software from you also gets a copy of these terms or the
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URL for them above, as well as copies of any plain-text lines
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beginning with `Required Notice:` that the licensor provided
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with the software. For example:
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> Required Notice: Copyright Yoyodyne, Inc. (http://example.com)
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## Changes and New Works License
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The licensor grants you an additional copyright license to
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make changes and new works based on the software for any
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permitted purpose.
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## Patent License
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The licensor grants you a patent license for the software that
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covers patent claims the licensor can license, or becomes able
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to license, that you would infringe by using the software.
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## Noncommercial Purposes
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Any noncommercial purpose is a permitted purpose.
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## Personal Uses
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Personal use for research, experiment, and testing for
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the benefit of public knowledge, personal study, private
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entertainment, hobby projects, amateur pursuits, or religious
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observance, without any anticipated commercial application,
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is use for a permitted purpose.
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## Noncommercial Organizations
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Use by any charitable organization, educational institution,
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public research organization, public safety or health
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organization, environmental protection organization,
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or government institution is use for a permitted purpose
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regardless of the source of funding or obligations resulting
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from the funding.
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## Fair Use
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You may have "fair use" rights for the software under the
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law. These terms do not limit them.
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## No Other Rights
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These terms do not allow you to sublicense or transfer any of
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your licenses to anyone else, or prevent the licensor from
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granting licenses to anyone else. These terms do not imply
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any other licenses.
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## Patent Defense
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If you make any written claim that the software infringes or
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contributes to infringement of any patent, your patent license
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for the software granted under these terms ends immediately. If
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your company makes such a claim, your patent license ends
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immediately for work on behalf of your company.
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## Violations
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The first time you are notified in writing that you have
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violated any of these terms, or done anything with the software
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not covered by your licenses, your licenses can nonetheless
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continue if you come into full compliance with these terms,
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and take practical steps to correct past violations, within
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32 days of receiving notice. Otherwise, all your licenses
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end immediately.
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## No Liability
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***As far as the law allows, the software comes as is, without
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any warranty or condition, and the licensor will not be liable
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to you for any damages arising out of these terms or the use
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or nature of the software, under any kind of legal claim.***
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## Definitions
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The **licensor** is the individual or entity offering these
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terms, and the **software** is the software the licensor makes
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available under these terms.
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**You** refers to the individual or entity agreeing to these
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terms.
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**Your company** is any legal entity, sole proprietorship,
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or other kind of organization that you work for, plus all
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organizations that have control over, are under the control of,
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or are under common control with that organization. **Control**
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means ownership of substantially all the assets of an entity,
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or the power to direct its management and policies by vote,
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contract, or otherwise. Control can be direct or indirect.
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**Your licenses** are all the licenses granted to you for the
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software under these terms.
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**Use** means anything you do with the software requiring one
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of your licenses.
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Required Notice: Copyright © 2026 Anil Kumar Challagandla
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MIT License
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Copyright (c) 2026 Anil Kumar Challagandla
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Permission is hereby granted, free of charge, to any person obtaining a copy
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of this software and associated documentation files (the "Software"), to deal
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in the Software without restriction, including without limitation the rights
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to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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copies of the Software, and to permit persons to whom the Software is
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furnished to do so, subject to the following conditions:
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The above copyright notice and this permission notice shall be included in all
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copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.

‎MANIFEST.in‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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include README.md
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include LICENSE
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include COMMERCIAL-LICENSING.md
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include THIRD_PARTY_NOTICES.md
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include SECURITY.md
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include environment.yml

‎README.md‎

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[Security](SECURITY.md) ·
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[License](LICENSE)
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OmicsANG is source-available under the PolyForm Noncommercial License 1.0.0. It
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is not open-source software. This release is offered without a license fee only
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for uses permitted by that license. See
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[License and commercial use](#license-and-commercial-use) before using or
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redistributing it.
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OmicsANG is open-source software under the [MIT License](LICENSE), free to use,
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modify, and redistribute — including commercially. See [License](#license) for
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the details that still matter.
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## Trust boundary
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[SECURITY.md](SECURITY.md). The current security contact is Anil Kumar Challagandla.
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No response time, remediation deadline, or compliance certification is promised.
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## License and commercial use
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OmicsANG is source-available under the
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[PolyForm Noncommercial License 1.0.0](LICENSE). This release is offered without
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a license fee for uses that license permits. The license permits any
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noncommercial purpose, specified personal uses without anticipated commercial
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application, and use by the organizations it lists, including educational
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institutions and public research organizations. It does not grant commercial-use
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rights. Commercial freelance, consulting, internal business, hosted, or other
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commercial use requires a separate written commercial license. If a planned use
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is commercial or the boundary is unclear, request a written license through the
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contact route in
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[COMMERCIAL-LICENSING.md](COMMERCIAL-LICENSING.md):
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[challagandla.anil@gmail.com](mailto:challagandla.anil@gmail.com).
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`COMMERCIAL-LICENSING.md` is informational and does not grant a license or
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modify `LICENSE`. Third-party dependencies and vendored browser components
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remain under their own licenses and notices; see `THIRD_PARTY_NOTICES.md`.
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Future releases, support, or hosted offerings may have different terms or
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pricing. The `LICENSE` file shipped with each release controls that release.
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## License
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OmicsANG is licensed under the [MIT License](LICENSE). You may use, copy,
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modify, and redistribute it, for commercial or noncommercial purposes, provided
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the copyright notice and permission notice are retained. It is offered as-is,
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without warranty or liability — see `LICENSE` for the operative wording.
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Third-party dependencies and vendored browser components remain under their own
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licenses and notices; the MIT grant here does not replace those terms. See
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`THIRD_PARTY_NOTICES.md`. The `LICENSE` file shipped with each release controls
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that release.
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## Feedback and contributions
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‎benchtop/__init__.py‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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"""OmicsANG — a local mission-control IDE for bioinformatics pipelines + AI agents."""
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__version__ = "0.2.1"

‎benchtop/__main__.py‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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"""Command-line launcher for the loopback-only OmicsANG application."""
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from __future__ import annotations

‎benchtop/config_form.py‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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"""Schema-aware config forms.
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These pipelines ship no JSON schema, so we *infer* one:

‎benchtop/env_compat.py‎

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# SPDX-FileCopyrightText: 2026 Anil Kumar Challagandla
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# SPDX-License-Identifier: PolyForm-Noncommercial-1.0.0
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# SPDX-License-Identifier: MIT
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"""Environment-name compatibility for the OmicsANG rebrand.
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The public ``OMICSANG_*`` names are authoritative. Legacy ``BENCHTOP_*``

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