Contact address [email protected] for security reports, conduct reports and feedback
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@@ -5,6 +5,10 @@ type: software
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authors:
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authors:
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- family-names: "Yaylali"
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- family-names: "Yaylali"
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given-names: "Kemal"
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given-names: "Kemal"
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contact:
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- family-names: "Yaylali"
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given-names: "Kemal"
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email: "[email protected]"
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version: "2.0.0"
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version: "2.0.0"
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date-released: "2026-09-30"
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date-released: "2026-09-30"
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license: MIT
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license: MIT
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@@ -25,6 +25,6 @@ anyone representing the project elsewhere.
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## Enforcement
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## Enforcement
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Report problems privately to the maintainer through the contact details on https://gitea.yaylali.uk/kemal. Reports
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Report problems privately to **[email protected]**. Reports are handled confidentially. The maintainer may edit
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are handled confidentially. The maintainer may edit or remove contributions and may block people who do not follow
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or remove contributions and may block people who do not follow this code, starting with a private warning where
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this code, starting with a private warning where that is reasonable.
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that is reasonable.
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@@ -62,3 +62,5 @@ and 3.13. If your change touches file formats, calling, QC or outputs, also run
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Use the issue templates. For a wrong or unexpected result, attach the `run_manifest.json` of the run and the exact
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Use the issue templates. For a wrong or unexpected result, attach the `run_manifest.json` of the run and the exact
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command; it records every version, option and input checksum. Please do not attach vendor files or any genetic data
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command; it records every version, option and input checksum. Please do not attach vendor files or any genetic data
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of real people. For security issues see `SECURITY.md`.
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of real people. For security issues see `SECURITY.md`.
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Questions and feedback that do not fit an issue are welcome at **[email protected]**.
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@@ -40,6 +40,7 @@ It runs on anything from a Raspberry Pi to a cloud server.
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* [Development](#development)
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* [Development](#development)
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* [Repository layout](#repository-layout)
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* [Repository layout](#repository-layout)
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* [Documentation](#documentation)
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* [Documentation](#documentation)
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* [Feedback and support](#feedback-and-support)
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* [Citing](#citing)
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* [Citing](#citing)
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* [Licence, data and trademarks](#licence-data-and-trademarks)
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* [Licence, data and trademarks](#licence-data-and-trademarks)
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@@ -356,6 +357,12 @@ packaging/ conda recipes (plus Dockerfile at the root)
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* [`CONTRIBUTING.md`](CONTRIBUTING.md), [`SECURITY.md`](SECURITY.md), [`CODE_OF_CONDUCT.md`](CODE_OF_CONDUCT.md)
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* [`CONTRIBUTING.md`](CONTRIBUTING.md), [`SECURITY.md`](SECURITY.md), [`CODE_OF_CONDUCT.md`](CODE_OF_CONDUCT.md)
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* [`branding/README.md`](branding/README.md) and [`blog/`](blog/)
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* [`branding/README.md`](branding/README.md) and [`blog/`](blog/)
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## Feedback and support
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Bug reports and feature requests go to the [issue tracker](https://gitea.yaylali.uk/kemal/SimurgArray/issues), using
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the templates. Questions, feedback and anything that should not be public, such as security reports, go to
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**[email protected]**.
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## Citing
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## Citing
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If SimurgArray helps your research, please cite it using [`CITATION.cff`](CITATION.cff) (version 2.0.0, 2026).
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If SimurgArray helps your research, please cite it using [`CITATION.cff`](CITATION.cff) (version 2.0.0, 2026).
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@@ -6,8 +6,7 @@ Security fixes go into the latest release. Older releases are not patched; upgra
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## Reporting a vulnerability
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## Reporting a vulnerability
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Please do not open a public issue for a security problem. Contact the maintainer privately through the contact
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Please do not open a public issue for a security problem. Write privately to **[email protected]** and include:
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details on the maintainer's profile page, https://gitea.yaylali.uk/kemal, and include:
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* the SimurgArray version (`simurg --version`),
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* the SimurgArray version (`simurg --version`),
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* what an attacker could do and under which conditions,
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* what an attacker could do and under which conditions,
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@@ -153,6 +153,6 @@ A tool for researchers does not need a marketing department, but it does need to
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## Thank you
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## Thank you
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If you have read all five posts, you now know more about SimurgArray than most of the machines it has run on. The code goes public on the calendar from the previous post. Until then, if you work with arrays and want to try it, or want to tell me which of my choices are wrong, I would be glad to hear from you.
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If you have read all five posts, you now know more about SimurgArray than most of the machines it has run on. The code goes public on the calendar from the previous post. Until then, if you work with arrays and want to try it, or want to tell me which of my choices are wrong, I would be glad to hear from you at support@yaylali.uk.
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The birds made it to the mountain. Now the interesting part starts.
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The birds made it to the mountain. Now the interesting part starts.
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@@ -10,6 +10,7 @@ license = "MIT"
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license-files = ["LICENSE", "THIRD_PARTY_NOTICES.md"]
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license-files = ["LICENSE", "THIRD_PARTY_NOTICES.md"]
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requires-python = ">=3.12"
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requires-python = ">=3.12"
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authors = [{ name = "Kemal Yaylali" }]
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authors = [{ name = "Kemal Yaylali" }]
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maintainers = [{ name = "Kemal Yaylali", email = "[email protected]" }]
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keywords = ["genotyping", "microarray", "infinium", "idat", "gtc", "vcf", "bioinformatics"]
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keywords = ["genotyping", "microarray", "infinium", "idat", "gtc", "vcf", "bioinformatics"]
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classifiers = [
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classifiers = [
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"Development Status :: 5 - Production/Stable",
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"Development Status :: 5 - Production/Stable",
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