diff --git a/.github/workflows/check-book.yml b/.github/workflows/check-book.yml index c8347cd..2c15d90 100644 --- a/.github/workflows/check-book.yml +++ b/.github/workflows/check-book.yml @@ -13,7 +13,7 @@ jobs: - name: Set up Python uses: actions/setup-python@v1 with: - python-version: 3.10.20 + python-version: 3.13.15 - name: Install dependencies run: | diff --git a/.github/workflows/gh-pages.yml b/.github/workflows/gh-pages.yml index c93caca..df9e0b8 100644 --- a/.github/workflows/gh-pages.yml +++ b/.github/workflows/gh-pages.yml @@ -19,7 +19,7 @@ jobs: - name: Set up Python uses: actions/setup-python@v1 with: - python-version: 3.10.20 + python-version: 3.13.15 - name: Install dependencies run: | diff --git a/docs/as1/as1.0.ipynb b/docs/as1/as1.0.ipynb index cfef192..73ec9b3 100644 --- a/docs/as1/as1.0.ipynb +++ b/docs/as1/as1.0.ipynb @@ -32,13 +32,13 @@ "id": "kJqs4cXppk8j" }, "source": [ - "## Terms of use\n", + "## Citation and terms of use\n", "\n", - "Data from this project will be made publicly available before journal publication, subject to the following publication embargo: unless otherwise stated, analyses of project data are ongoing and publications are in preparation by project partners, and it is not permitted to use project data for publication (including any type of communication with the general public) without prior permission from the originating partner studies. The publication embargo will expire 24 months after the data is integrated into the Malaria Genome Vector Observatory data repository, or earlier, if the project partner agrees to remove the embargo before the expiry date.\n", + "Data from `As1.0` are released openly and can be downloaded and analysed for any purpose. If you use these data as part of a publication, please cite the following paper:\n", "\n", - "Although malaria is generally an endemic rather than an epidemic disease, and the focus of this project is on surveillance of disease vectors rather than pathogens, our data terms of use build on MalariaGEN's approach to data sharing, and adopt norms which have been established for rapid sharing of pathogen genomic data during disease outbreaks. The primary rationale for this approach is that malaria remains a public health emergency, where ethically appropriate and rapid sharing of genomic surveillance data can help to detect and respond to biological threats such as new forms of insecticide resistance, and to adapt malaria vector control strategies to different settings and changing circumstances.\n", - "\n", - "The publication embargo for all data in this release will expire on the **5th of April 2028**. \n", + "```{admonition} Citation\n", + "Tristan P. W. Dennis et al. ,The origin, history, and resistance architecture of an invasive urban malaria mosquito in Africa.Science393,eadx6925(2026).[10.1126/science.adx6925](https://www.science.org/doi/10.1126/science.adx6925?referrer=https%3A%2F%2Fwww.google.com%2F)\n", + "```\n", "\n", "If you have any questions about the terms of use, please email [support@malariagen.net](mailto:support@malariagen.net)." ] @@ -891,9 +891,9 @@ }, "environment": { "kernel": "mgenv_7.3.0", - "name": "workbench-notebooks.m142", + "name": "workbench-notebooks.m148", "type": "gcloud", - "uri": "us-docker.pkg.dev/deeplearning-platform-release/gcr.io/workbench-notebooks:m142" + "uri": "us-docker.pkg.dev/deeplearning-platform-release/gcr.io/workbench-notebooks:m148" }, "kernelspec": { "display_name": "mgenv_7.3.0", @@ -910,7 +910,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.12.11" + "version": "3.12.13" } }, "nbformat": 4,