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Host repository for The Turing Way: a how to guide for reproducible data science

Home Page: https://the-turing-way.netlify.app

License: Other

Shell 2.64% TeX 84.43% Python 9.31% CSS 1.60% JavaScript 1.78% Makefile 0.23%
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the-turing-way's Introduction

The Turing Way

This README.md file in also available in Chinese (README-Chinese), Dutch (README-Dutch), French (README-French.md), German (README-German.md), Indonesian (README-Indonesian), Italian (README-Italian), Korean (README-Korean), Portuguese (README-Portuguese), and Spanish (README-Spanish) (listed alphabetically).

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Welcome to The Turing Way project GitHub repository. This is where all the components of the project are developed, reviewed and maintained.

The Turing Way is a handbook to reproducible, ethical and collaborative data science. We involve and support a diverse community of contributors to make data science accessible, comprehensible and effective for everyone. Our goal is to provide all the information that researchers and data scientists in academia, industry and the public sector need at the start of their projects to ensure that they are easy to reproduce at the end.

The Turing Way project is a book, community, an open-source project and a culture of collaboration. This is shown in four illustrations, the first one showing the Turing Way book, the second showing how the community can grow, the third one showing two people collaborating on a pull request, the last one is showing a balance where reproducibility is valued more than the number of papers published

The Turing Way is a book, a community and a global collaboration.

All stakeholders, including students, researchers, software engineers, project leaders and funding teams, are encouraged to use The Turing Way to understand their roles and responsibility of reproducibility in data science. You can read the book online, contribute to the project as described in our contribution guidelines and re-use all materials (see the License). We also invite you to contribute to the translation of The Turing Way into different languages and help make research reproducibility accessible to a wider global audience. If you are interested in contributing, please refer to the guidelines provided in the book's handbook and join our collaborative efforts.

This is a screenshot of the online Turing Way book. It also shows one of the Turing Way illustrations at the beginning of the book. In this illustration, there is a road or path with shops for different data science skills. People can go in and out with their shopping cart and pick and choose what they need.

Screenshot of The Turing Way online book (use this image in a presentation)

Started in 2019 as a lightly opinionated guide to data science, The Turing Way has since expanded into a series of guides on Reproducible Research, Project Design, Communication, Collaboration and Ethical Research. Each guide offers chapters on a range of topics covering best practices, guidance and recommendations. These chapters have been co-authored by contributors who are students, researchers, educators, community leaders, policy-makers and professionals from diverse backgrounds, lived experiences and domain knowledge.

Our moonshot goal is to make reproducibility "too easy not to do".

Table of Contents:

🎧 If you prefer an audio introduction to the project, our team member Rachael presented at the Open Science Fair 2019 in Porto and her demo was recorded by the Orion podcast. The Turing Way overview starts at minute 5:13.

About the Project

Reproducible research is necessary to ensure that scientific work can be trusted. Funders and publishers are beginning to require that publications include access to the underlying data and the analysis code. The goal is to ensure that all results can be independently verified and built upon in future work. This is sometimes easier said than done. Sharing these research outputs means understanding data management, library sciences, software development, and continuous integration techniques: skills that are not widely taught or expected of academic researchers and data scientists. As these activities are not commonly taught, we recognise that the burden of requirement and new skill acquisition can be intimidating to individuals who are new to this world. The Turing Way is a handbook to support students, their supervisors, funders and journal editors in ensuring that reproducible data science is "too easy not to do" even for people who have never worked in this way before. It will include training material on version control, analysis testing, and open and transparent communication with future users, and build on Turing Institute case studies and workshops. This project is openly developed and any and all questions, comments and recommendations are welcome at our GitHub repository: https://github.com/the-turing-way/the-turing-way.

The Team

The Turing Way is an open collaboration and community-driven project. Everyone who contributes to this book, no matter how small or big their contributions are, is recognised in this project as a contributor and a community member. Long-term contributors of the project are considered part of the core contributors groups who take on various leadership roles in the project, as described in the Ways of Working document.

The project is coordinated by the co-lead investigators Kirstie Whitaker (founder) and Malvika Sharan, and hosted at The Alan Turing Institute. Anne Lee Steele is the Community Manager of The Turing Way since March 2022 and Alexandra Araujo Alvarez is the Research Project Manager since February 2023.

You can read The Turing Way acknowledgement process and Record of Contributions to learn about how we acknowledge your work and how our contributors are highlighted in the project. Please see the Contributors Table for the GitHub profiles of all our contributors.

Contributing

🚧 This repository is always a work in progress and everyone is encouraged to help us build something that is useful to the many. 🚧

Everyone who joins the project is expected to follow our code of conduct and to check out our contributing guidelines for more information on how to get started. We want to meet our contributors where they are. Therefore, we provide multiple entry points for you to contribute based on your interest, availability or skill requirements.

This image shows six of many kinds of contributions that anyone can make. These are: Develop and share, Maintain and improve, Share resources, Review and update, Make it global through translation, and Share best practices

Contributions include development and sharing of new chapters; maintenance and improvement of existing chapters; sharing The Turing Way resources; review and updating of previously developed materials; translating its chapter to help make this project globally accessible, and sharing best practices in research.

Community members are provided with opportunities to learn new skills, share their ideas and collaborate with others. They are also given mentorship opportunities in the project as they make their contributions to The Turing Way or other open source projects and are encouraged to mentor new participants of the project.

We have created a promotion pack to help you in presenting and sharing about The Turing Way in your network.

Citing The Turing Way

We release the latest version of The Turing Way through the project's Zenodo archive using DOI: 10.5281/zenodo.3233853. This DOI is a "concept DOI" which means it will always resolve to the latest version. If you need to cite a specific version you can find those DOIs at the zenodo page above. DOIs allow us to archive the repository and they are really valuable to ensure that the work is tracked in academic publications.

The citation will look something like this:

The Turing Way Community. (2021, November 10). The Turing Way: A handbook for reproducible, ethical and collaborative research. Zenodo. http://doi.org/10.5281/zenodo.3233853

To see our workflow for making releases for different versions and to suggest improvements, please head over to the release workflow document.

You can share the human-readable URL to a page in the book, for example, https://the-turing-way.netlify.app/reproducible-research/overview/overview-definitions.html, but be aware that the project is under development and therefore these links may update over time. You might want to include a web archive link such as https://web.archive.org/web/20191030093753/https://the-turing-way.netlify.com/reproducibility/03/definitions.html to make sure that you don't end up with broken links everywhere!

We really appreciate any references that you make to The Turing Way project in your and we hope it is useful. If you have any questions please get in touch.

Citing The Turing Way Illustrations

This is an example of one of The Turing Way illustrations. It tries to shows the evolution towards an open science era

The Turing Way illustrations are created by artists from Scriberia as part of The Turing Way book dashes in Manchester on 17 May 2019, London on 28 May 2019 and 21 February 2020, and online on 27th November 2020 and 28th May 2021. They depict a variety of content from the handbook, collaborative efforts in the community and The Turing Way project in general. These illustrations are available on Zenodo (https://doi.org/10.5281/zenodo.3332807) under a CC-BY license.

When using any of the images, please include the following attribution:

This image was created by Scriberia for The Turing Way community and is used under a CC-BY licence.

The latest version from Zenodo can be cited as:

The Turing Way Community, & Scriberia. (2021, May 29). Illustrations from the Turing Way book dashes. Zenodo. https://doi.org/10.5281/zenodo.4906004

We have used a few of these illustrations in the Welcome Bot's responses to new members' contributions in this GitHub repository.

Get in Touch

Email

You can contact The Turing Way team by emailing [email protected] or [email protected].

You can also contact Anne Lee Steele ([email protected]), Malvika Sharan ([email protected]), Alexandra Araujo Alvarez ([email protected]) or Kirstie Whitaker ([email protected]).

Chat

Connect with others and discuss your ideas on Slack using this invitation link.

The room is also accessible with a Matrix account at #alan-turing-institute_the-turing-way:gitter.im.

Receive Updates

We have a tinyletter mailing list to which we send monthly project updates. Subscribe at https://tinyletter.com/TuringWay.

You can also follow us on Twitter (@turingway) and Mastodon.

Contributors

Thanks goes to these wonderful people (emoji key):

Aakash Raj
Aakash Raj

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Aasiyah Rashan
Aasiyah Rashan

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Abel Siqueira
Abel Siqueira

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Achintya Rao

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Adina Wagner

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Aditi Dutta

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Aditi Shenvi

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Afzal Ansari
Afzal Ansari

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Ago3

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Ahmed Essam

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Aida Mehonic

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Albert Hornos Vidal
Albert Hornos Vidal

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Alden Conner
Alden Conner

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Alejandro Β©
Alejandro Β©

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Aleksandra Zaforemska
Aleksandra Zaforemska

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Alex Bird
Alex Bird

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Alex Chan
Alex Chan

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Alex Clarke
Alex Clarke

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Alexander Morley
Alexander Morley

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Ali Seyhun Saral
Ali Seyhun Saral

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Ali Seyhun Saral
Ali Seyhun Saral

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Ambreen Masud
Ambreen Masud

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Andrea PierrΓ©
Andrea PierrΓ©

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Andrea SΓ‘nchez-Tapia (she/her)
Andrea SΓ‘nchez-Tapia (she/her)

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Andreea Avramescu
Andreea Avramescu

πŸ–‹
Andrei Alexandru
Andrei Alexandru

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Andrei Leonard Nicusan
Andrei Leonard Nicusan

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Andrew Stewart
Andrew Stewart

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Andrian Nobella
Andrian Nobella

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Andy Zimolzak
Andy Zimolzak

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AngelikaKerlin
AngelikaKerlin

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Angelo Varlotta
Angelo Varlotta

🌍
Aniketh Varma
Aniketh Varma

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AnkitaGarg95
AnkitaGarg95

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Ann-Marie Mallon
Ann-Marie Mallon

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Anna Hadjitofi
Anna Hadjitofi

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Anna Krystalli
Anna Krystalli

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Anna Zanchetta
Anna Zanchetta

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Annabel Elizabeth Whipp
Annabel Elizabeth Whipp

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Anne Fouilloux
Anne Fouilloux

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Anne Lee Steele
Anne Lee Steele

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Aras Selvi
Aras Selvi

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Arduin

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Arya A

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Aryan nath

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Asma Kacem
Asma Kacem

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Augustinas Sukys
Augustinas Sukys

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Barbara Vreede
Barbara Vreede

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Bastian Greshake Tzovaras
Bastian Greshake Tzovaras

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Batool
Batool

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Becki Green
Becki Green

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Becky Arnold
Becky Arnold

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Ben van Werkhoven
Ben van Werkhoven

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Benjamin Mummery
Benjamin Mummery

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Beth Montague-Hellen

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Bouwe Andela

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Brandon Lee
Brandon Lee

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Brian O'Neil
Brian O'Neil

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Brigitta SipΕ‘cz
Brigitta SipΕ‘cz

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Bruno Camino
Bruno Camino

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Callum Mole
Callum Mole

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Cameron Trotter
Cameron Trotter

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Camila Rangel Smith
Camila Rangel Smith

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Cari Hyde-Vaamonde
Cari Hyde-Vaamonde

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Carlos Martinez
Carlos Martinez

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Carlos Vladimiro GonzΓ‘lez Zelaya
Carlos Vladimiro GonzΓ‘lez Zelaya

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CarlosMFerr

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Cassandra Gould van Praag
Cassandra Gould van Praag

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CeilidhWelsh

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Cem Ulus

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Cghlewis

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Chad Gilbert
Chad Gilbert

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Chandler Klein
Chandler Klein

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Chanuki Illushka Seresinhe
Chanuki Illushka Seresinhe

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Charlotte Watson
Charlotte Watson

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Chris Hartgerink
Chris Hartgerink

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Chris Holdgraf
Chris Holdgraf

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Chris Markiewicz
Chris Markiewicz

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Chris Tomlinson
Chris Tomlinson

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Christina Hitrova
Christina Hitrova

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Christopher Lovell
Christopher Lovell

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Clare Liggins
Clare Liggins

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Colin Sauze
Colin Sauze

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Collin Schwantes
Collin Schwantes

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DACNC

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DDelbarre

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DaisyParry

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Dan Brady
Dan Brady

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Dan Hobley
Dan Hobley

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Dan Kerchner
Dan Kerchner

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Danbee Kim
Danbee Kim

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Daniel Lintott
Daniel Lintott

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Daniel Mietchen
Daniel Mietchen

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Daniel NΓΌst
Daniel NΓΌst

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Danny Garside
Danny Garside

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Danping

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David Foster
David Foster

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David Gregg
David Gregg

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David Llewellyn-Jones
David Llewellyn-Jones

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David Stansby
David Stansby

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DerienFe
DerienFe

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Diego Alonso Alvarez
Diego Alonso Alvarez

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Dimitra Blana
Dimitra Blana

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Dinesh kumar
Dinesh kumar

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Dorien Huijser
Dorien Huijser

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Dr Owain Kenway
Dr Owain Kenway

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Ed Chalstrey
Ed Chalstrey

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Edwin Ajong
Edwin Ajong

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Eirini Malliaraki
Eirini Malliaraki

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Eirini Zormpa
Eirini Zormpa

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Elisa Rauseo
Elisa Rauseo

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Elisa-on-GitHub
Elisa-on-GitHub

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Elizabeth DuPre
Elizabeth DuPre

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Em K
Em K

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Emmanuel G. REYNAUD
Emmanuel G. REYNAUD

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Emmy Tsang
Emmy Tsang

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Enrico Glerean
Enrico Glerean

πŸ›
Eric Daub
Eric Daub

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Eric Leung
Eric Leung

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Eric R Scott
Eric R Scott

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Esther Plomp
Esther Plomp

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Evelina Gabasova
Evelina Gabasova

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Faruk D.
Faruk D.

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Federico Nanni
Federico Nanni

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Ferran Gonzalez Hernandez
Ferran Gonzalez Hernandez

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Flavio Petruzzellis
Flavio Petruzzellis

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Florian Gilcher
Florian Gilcher

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Frances Cooper
Frances Cooper

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Frances Madden
Frances Madden

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Froguin99
Froguin99

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FrozenLines
FrozenLines

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Fuad Reza Pahlevi
Fuad Reza Pahlevi

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GabinWK
GabinWK

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Georgia
Georgia

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Georgia Atkinson
Georgia Atkinson

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Georgia Tomova
Georgia Tomova

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Georgiana Elena
Georgiana Elena

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Gertjan van den Burg
Gertjan van den Burg

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Gianni Scolaro
Gianni Scolaro

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Gigi Kenneth
Gigi Kenneth

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Giulia Crocioni
Giulia Crocioni

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Goodnews Sandy
Goodnews Sandy

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Graham Lee
Graham Lee

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Greg Caporaso
Greg Caporaso

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Greg Kiar
Greg Kiar

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Guillaume Flandin
Guillaume Flandin

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Gustavo Becelli do Nacimento
Gustavo Becelli do Nacimento

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Hao Ye
Hao Ye

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Heidi Seibold
Heidi Seibold

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Hieu Hoang
Hieu Hoang

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Iain
Iain

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Ian Hinder
Ian Hinder

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Ikko Ashimine
Ikko Ashimine

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IsabelBirds
IsabelBirds

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Isil Bilgin
Isil Bilgin

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Ismael-KG
Ismael-KG

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JKasmire
JKasmire

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Jack Breen
Jack Breen

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Jade Pickering
Jade Pickering

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JadeHotchkiss
JadeHotchkiss

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James Baker
James Baker

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James Kent
James Kent

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James Myatt
James Myatt

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James Robinson
James Robinson

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James Thomas
James Thomas

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Jamie J Quinn
Jamie J Quinn

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Jannetta Steyn
Jannetta Steyn

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Jaro Camphuijsen
Jaro Camphuijsen

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Jason Gates
Jason Gates

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Jennifer Ding
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Jeremy Leipzig
Jeremy Leipzig

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Jerry de Vos
Jerry de Vos

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Jessica
Jessica

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Jessy Provencher
Jessy Provencher

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Jez Cope
Jez Cope

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Jill Wang
Jill Wang

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Jim Circadian
Jim Circadian

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Jim Madge

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Joanna Leng
Joanna Leng

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Joe Early

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Johanna Bayer

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Joshua Teves
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Kalle Westerling
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Kate Hertweck
Kate Hertweck

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KarolineLeiberg
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Katherine Dixey
Katherine Dixey

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Katriona Goldmann
Katriona Goldmann

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Kelly Barnes
Kelly Barnes

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Kelly-dot
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Kesson Magid

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Kevin Kunzmann
Kevin Kunzmann

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Kim De Ruyck
Kim De Ruyck

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Kim De Ruyck
Kim De Ruyck

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Kirstie Whitaker
Kirstie Whitaker

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Kristijan Armeni
Kristijan Armeni

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Krunal Rank
Krunal Rank

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Lachlan Mason
Lachlan Mason

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Laura Carter
Laura Carter

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Laura Mugeha
Laura Mugeha

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Lenka
Lenka

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Liberty Hamilton
Liberty Hamilton

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Lincoln Colling
Lincoln Colling

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Lion-admin
Lion-admin

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Louise Bowler

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Lovkush

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Luca Bertinetto

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Luigi Scalzone
Luigi Scalzone

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Luis Santos
Luis Santos

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Luisa Orozco
Luisa Orozco

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Luke Conibear
Luke Conibear

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Luna
Luna

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Lupe CaMay
Lupe CaMay

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Lydia France
Lydia France

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MLeston2022
MLeston2022

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Mahwish M
Mahwish M

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Malvika Sharan
Malvika Sharan

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Marcos Ellys Rocha Honorato
Marcos Ellys Rocha Honorato

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Maria Eriksson
Maria Eriksson

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This project follows the all-contributors specification. Contributions of any kind welcome!

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the-turing-way's Issues

Stakeholders/initiatives to engage with

Highlighting this as a separate activity coming out of the discussion in issue #6 , some people initiatives that we want to engage with, either for input to some of the material or just as a good way to spread the word.

Advertise and Promote Workshops

Links to Workshops

The following dissemination channels have been identified in the dissemination plan

Blogs

Mailing lists

  • [email protected]
  • [email protected]
  • [email protected]
  • Manchester Research IT newsletter
  • Possibly Manchester Data Science Institute mailing list (Rosie has requested this)
  • weekly Turing bulletin
  • Turing slack channel
  • Mercian RDM group mailing list
  • Sheffield RSE mailing list

Presentations at local networks

Birmingham

  • The Hacker Within monthly meetings
  • Academic Programmers SIG

Sheffield

Manchester

  • TBC - following up a few leads

Turing

  • Reproducible Research drop-ins
  • Pizza parties scheduled around project meetings in London

Oxford

  • Reproducible Research Oxford
  • Oxford Neuroscience

Other

  • OpenCon Librarian call updates
  • Mozilla (Global Sprint / Mozfest)
  • eLife?

Twitter

Direct emails

Librarians

  • Josh Sendall and Hardy Schwamm at Lancaster Uni
  • Katherine Stephan at LJMU
  • Judith Carr at Liverpool

Sprint at the Turing Institute | November 2018

Hi folks - does 22 and 23 November work for team members? Please comment below if you could come to the Turing for at least part of those two days 😸

List of folks who can attend:


Update COOL! It looks like we can do those days! I think we're just waiting on @annakrystalli (who I've emailed with and I think the dates are ok), and @LouiseABowler and the "other Turing RSE" but as they're based at Turing we should be ok.

I've pinged @amitmulji in this thread to be able to give you information about booking your travel (thank you @pherterich for reminding me!) so that's the next step.....but for now just save the dates please!


Some more things on the to do list:

  • Booked rooms at Turing Institute
  • Book travel and accomodation (KW sent emails to Turing travel agency....see below to check that the information is correct!)
  • Add names to security list so you can get into the building
  • Create an agenda - see #18

Travel requirements

Accomodation:

Train:

  • @alexmorley: no travel required
  • @annakrystalli: 18:00 Sheffield ➑️ London Euston on 21; 16:42 London Euston ➑️ Sheffield on 24
  • @pherterich: 7:30 Birmingham New Street ➑️ London Euston on 22; 19:03 London Euston ➑️ Birmingham New Street on 23
  • @r-j-arnold: 15:00 Sheffield ➑️ London St Pancras on 21; 20:02 London St Pancras ➑️ Sheffield on 24
  • @rosiehigman: 17:35 Manchester Piccadilly ➑️ London Euston on 21; 19:00 London Euston ➑️ Manchester Piccadilly on 22

Create a template for chapters

Based on the ideas noted down in the hackmd doc #30, I suggest

  • Summary
  • Prerequisites / recommended skill level
  • Links to glossary?
  • Chapter content (depending on the content, this might be more structured, e.g. with exercises)
  • Checklist
  • What to learn next?
  • Recommended reading
  • Other useful links

@r-j-arnold @KirstieJane @rosiehigman @LouiseABowler @sgibson91 @annakrystalli does this cover the discussion? Do you want to reword anything? Let me know by Wednesday 12th ideally and I will then translate this into a md. file so we can start writing πŸŽ‰

Add everyone in alan-turing-institute organisation to this repository

We're still aiming to work openly, but for now I've added everyone who is a member of the alan-turing-institute GitHub organisation to have read access to this project!

Everyone: WELCOME! Please open an issue if you have any questions or comments, and come along to our Pizza Party πŸ• on Thursday πŸ˜‹

Write 1 paragraph description of the project for announcement

From @jamespjh's email to @KirstieJane:

Please write short external-audience summaries of your projects for announcement info for the programme. Of course, you have the option to just take this from your original proposal if you wish.

Note that we don't actually know when this announcement will be. Probably not 12 Nov as I'd originally suggested πŸ€·β€β™€οΈ. Good to be ready for it though ;)

Deadline Friday 9 Nov

Co-authoring platforms

Just putting down a list of options that we could use to write/display the final handbook with a few examples for discussion. This is just some brainstorming to start with, additions and comments on the options listed are welcome!

  • just GitHub like e.g. the Mozilla Science primers; might require a separate repository
  • GoogleDocs and Gitbooks like the Foster Open Science Training handbook: they started the document as a 3 day book sprint on Google, opened it up for a wide audience for review there (GoogleDocs provides a low barrier and thus, a fairly wide range of people commented on the initial draft); once comments were included they moved it to Gitbook (which charges for a larger group of collaborators...)
  • there are platforms like authorea, overleaf etc. that can all be integrated with git/GitHub if wanted, but having to interact with yet another platform/service might be too much of a barrier

Will some audiences prefer more traditional formats for the end product? PDFs for the checklists for example?

Contributing guidelines [Join the conversation]

I'd really like lots of people to contribute to this project, so we need super clear contributing guidelines!

I've collaboratively written a few, I think this one is my favourite. We'll need to figure out which parts to keep etc, and we can do that in part at the sprint next week, but it would be great to have something in place or in a pull request to get us started ✨


Update

Here's a master list from the comments below that need to be incorporated into the CONTRIBUTING.md file

  • Pull request and issue templates (and why we have them)
  • How do we acknowledge contributors
  • Reformat & edit section on how to write a chapter
    • The current section isn't very easy to read - one big list of bullet points. A figure would go a long way to making this easier!
    • Also need to add guides for someone outside of the core team contributing a chapter - how do they start and make sure they aren't repeating work already in progress or out of scope?
  • Need to explain about branches & forks etc! Bring in some pictures from git flow to help explain this.
  • Try to stay up to date with master/upstream as best you can to avoid merge requests!
  • Please don't re-write history! (rebase, reflog!)
  • Style guide - markdown on separate lines please
  • Try to write good commit messages: https://chris.beams.io/posts/git-commit/
  • Its fine to have lots of commits - including ones that break code. A good rule of thumb is to push up to GitHub when you do have passing tests then the CI has a good chance of passing everything 😸

Lets also make a GOVERNANCE.md document

  • Governance of the project, how are decisions made?
  • What is a maintainer, how do you become one?

Minor fixes as spotted by @sdruskat in #244

  • Replace BIDS Starter Kit string with The Turing Way where appropriate.
  • Acknowledge the source of the text somewhere, depending on license, etc.

A list of contributing guidelines that @KirstieJane (et al) have written/edited for other projects:

It would be SUPER helpful if anyone wanted to pull in the good stuff from any of these into our CONTRIBUTING guidelines ✨ Tagging @rainsworth because we've had this conversation πŸ‘Ύ

Sprint 21/22 Nov - agenda

Just making a note of everything to discuss at #2 that comes up in the other issues:

  • Code of Conduct - responsibilities
  • Code of Conduct - other content to add
  • Contributing - what else to add

Make pull request template and redo issue template

We're ok with updating the first entry in an issue with summaries of the discussions that flow down the thread to make it easier to follow where a conversation has gone.

It would be useful to have an issue template to make clear that we're going to keep summaries updated.

Introduce yourself

This issue needs to be discussed as currently all the contributors' names are recorded on README file

I've pulled together a fantastic team for the Turing Way but I don't think many of you know each other (or at least there are non overlapping connections in the social networks!)

Please could you submit a pull request with your edits to the contributors.md file.

  1. Fork the repository (let me know if you don't know how to do this!)
  2. Open the humans.md file.
  3. Copy the template to just below the last person who has entered their information.
  4. Replace the words "Template" with your full name and replace the words in italics with your answers.
  5. Save the file and open a pull request to the main repository ✨ πŸ‘Ύ

Ping me here if you have any questions!


Please check off your name when you've submitted the PR 😺

I've listed here the folks who are named on the project, but if you'd like to be additionally involved then THAT IS AWESOME. Just comment below and I'll update this list. (Eg Tim & Alex - I'm not sure how involved you want to be - its totally up to you!)


Update - Welcome to Sarah (@sgibson91) who is joining us as a member of the Turing research engineering team!

Shared literature database storage?

I am starting to work my way through relevant reading and was wondering if we would like to share some papers that are not openly available among the team and was wondering if there is a preferred solution to do so.

I think zotero could be used for that, but I don't know how keen people are on this.

We could also only share those files via a drop box like solution.

Other suggestions in the comments please.

Could I ask others to vote with thumbs up or down just to get an idea if you would like to see a shared literature database?


Update

  • Need everyone to join the zotero group
  • Investigate whether this can be linked from the repo somewhere

Plan next sprint in London

  • Complete doodle poll by Wed 5 Dec

Decision made: 24 & 25 15 & 16 January.

(Updated on 12 Dec because @KirstieJane realised she wasn't available on 24 Jan πŸ€¦β€β™€οΈ)

  • Book a room
  • 15: 9 - 13: David Blackwell (1st floor) then 14 -17: Turingery (4th floor)
  • 16: 9 - 17: Mary Shelly (2nd floor)
  • Let reception know who's coming

DONE!

  • Book travel
  • Create agenda
    • @rosiehigman can only make the 15th - so lets make this day mostly focused on workshops, communications around building the community of contributors, and data management
    • @annakrystalli can only make the 16th - so lets make this day more focused on binder and software

Add a ways of working document

To detail the levels of involvement of official members so that expectations of their time are reasonable.


Update

This should be closed soon - requires #74 to close

Outstanding things to add

  • comms, see #74
  • cleanup unused branches once your PR is merged
  • some words around the review process, using @r-j-arnold suggestion in #128

Build Project Board

Actions:

  • Decide on column labels (e.g. kanban style) - proposal below
  • Sort existing issues

Maybe submit abstract for presentation at this conference?

I (@KirstieJane) am not able to attend this conference, but if anyone wanted to go and present the Turing Way I'd be DELIGHTED to support that.

Let me know if you're up for speaking before the deadline on 9 December.


I am delighted to announce our complete list of keynote speakers for the upcoming DataTech19 conference (organised by The Data Lab). DataTech19 will welcome members of industry, the public sector, and academia alike for a day of technical discussions surrounding important topics in data science. Join us on 14 March 2019 in Edinburgh, to share emerging research, technical expertise, and engage in networking and collaboration with other data scientists, analysts, developers, and engineers.

The list of keynotes now includes:

  • Debbie Bard, expert in machine learning at scale and data-intensive computing for experimental science, from the National Energy Research Scientific Computing Center (NERSC),
  • Mine Γ‡etinkaya-Rundel, Associate Professor of the Practice, Duke University, and Data Scientist + Professional Educator, RStudio, and
  • Jared Lander, Chief Data Scientist of Lander Analytics and Adjunct Professor of Statistics at Columbia University.

Our most recently announced keynote, Debbie Bard, leads the Data Science Engagement Group at the National Energy Research Scientific Computing Center (NERSC) within Berkeley National Lab. NERSC is the mission supercomputing center for the USA Department of Energy, and supports over 7000 scientists and 700 projects with supercomputing needs. A native of the UK, her career spans research in particle physics, cosmology and computing on both sides of the Atlantic. She obtained her PhD at Edinburgh University, and has worked at Imperial College London as well as the Stanford Linear Accelerator Center (SLAC) National Accelerator Laboratory in the USA, before joining the Data Department at NERSC, where she focuses on data-intensive computing and research, including supercomputing for experimental science and machine learning at scale.

To join data science experts such as Jared Lander, Mine Γ‡etinkaya-Rundel and Debbie Bard, consider submitting a talk/poster proposal for DataTech19, before the revised deadline on 9th of December 2018. We are welcoming submissions on topics such as: scaling algorithms, software and hardware to cope with large amounts of data, machine learning techniques, deep learning, data visualisation and query facilities, reproducible and collaborative data science, and more!

Find out how to submit your proposal and register to attend here: https://www.datafest.global/data-tech. For any questions, please get in touch at: [email protected].

Find times and venues for Workshops

This is our issue for collecting planning information for our binder workshops in February and March 2019.

Build a BinderHub Workshop | Sheffield

  • Date: 18 March 2019
  • Time: 9am - 5pm
  • Location: University of Sheffield
  • Address: COM-G12 - Main Lewin, 211 Portobello, Sheffield S1 4DP, United Kingdom
  • Local helpers:

Build a Binder Workshop | Manchester

  • Date: 1st March 2019
  • Time: 9am - 5pm
  • Location: University of Manchester
  • Address: Bell-Burnell Lecture theatre, Schuster Annexe, University of Manchester, Upper Brook St, Manchester M13 0HR
  • Local helpers:

Build a Binder Workshop | London

  • Date: 12th March 2019
  • Time: 9am - 5pm
  • Location: Ada Lovelace, Alan Turing Institute
  • Address: 96 Euston Rd, Kings Cross, London NW1 2DB, United Kingdom
  • Local helpers:

General researcher workshop at Turing - 6th March 12th March (TBC)
General researcher workshop in Manchester - 1st March
Binder hub maintainer workshop in Sheffield - 18th March

Organise Turing Way Pizza Party on 22 November

We're going to have a sprint at the Turing on 22 & 23 Nov (see #2) and I was thinking that it would be really cool to get the students, researchers and research engineers (and whomever else wants to come!) involved in the planning.

We could host a pizza party πŸ• at, say, 6pm on Thurs 22 Nov with a bunch of whiteboards etc where people could share their ideas about what we should cover??

To do

  • Ask the events team if there's anything else going on that day
  • Find a space (Enigma if possible, or the kitchen area?)
  • Ask the student services team if that would be interesting for the students & could they cross promote
  • Figure out how to order pizza and bill it to the project account
  • Order the pizza - make sure to cover a bunch of dietary requirements
  • ENJOY πŸ˜‹

Pizza party feedback

πŸ• Here's the write up of the post its πŸ•

  • Choose a good IDE with debugger, Git. ok integration, learn to use it fully, is worth it!
  • Difference between software & repo code with data
  • Writing tests (research code examples not software engineering examples)
  • If most of the process is automated but a small step needs to be manual (e.g. downloading data), how can we make that reproducible?
  • unit test best practices
  • Gain confidence in sharing early
  • Best practice when working with proprietary data
  • Focus on benefits from RR, what does it do for my career?
  • What should not be reproducible (crime victims, ...)
  • Numbered lists preferable
  • Distilled information
  • How to do reproducible research with data that can never be shared (e.g. health data)?
  • Mentoring community around manual (e.g. build connections with experts as incentive)
  • Maths and stats doesn't have a framework for sharing beyond papers (at least not obviously)

Next Milestone

This will probably require a fair bit of discussion etc. to reach a consensus so we should probably start early/soon!

Decide on the scope/goals of workshops

Dates and Locations - see #44 for more information

  • General researcher workshop at Turing - 12th March
  • General researcher workshop in Manchester - 1st March
  • Binder hub maintainer workshop in Sheffield - 18th March

Timetable for researcher-focused workshop

  • 9.30 - 10.00: Coffee and Registration
  • 10.00 - 10.30: Introduction to the workshop and The Turing Way
  • 10.30 - 12.00: Reproducible computing environment, motivations for using Binder and demonstrations (pull requests showing the consequences of changing a dependency)
  • 12.00 - 1.00: Lunch
  • 1.00 - 2.00: Zero to Binder
  • 2.00 - 2.30: Coffee
  • 2.30 - 3.30: Build your own Binder
  • 3.30 - 4.00: Demonstrating your Binder, general questions, feedback and close
  • 4.00 - 5.00: Optional hangout with instructors

Costs

Total costs are based on 30 attendees per workshop to help give an approximate estimate.

Manchester

  • Β£20 pp catering = Β£600

Sheffield

  • Catering is Β£20pp = Β£600

Turing

Totals

  • Estimated total cost for venue and catering ~ Β£2,200
  • Staff travel and accommodation costs (based on 5 people per workshop): Β£2,000

General Ideas

  • Repo for previous binder workshops: https://github.com/Build-a-binder/build-a-binder.github.io. Website at https://build-a-binder.github.io.
  • Possibly check in with Tim Head about lessons learned - particularly around marketing the workshops (what is binder and why would people care).
  • Recommend timings 10am to 4pm so that people can attend from quite a lot of places without needing a hotel room.
  • Suggested structure of the workshops is a demonstration in the morning and a chance to try it out yourself in the afternoon - need to think about a final activity to encourage people to stay.
  • Offer childcare and travel support
  • Aim to start promoting by mid January with workshops running from mid February onwards
  • Room requirements - 30 people, wifi, plenty of plugs, screen.
  • Find rooms & dates
  • Price up catering etc
  • Scope how many people can come

Question:

If too many people want to come, will we have a selection process? Or first come first served?

Show us where you work

Following the call of podcasts to share pictures of what you do when you listen to their podcast or where you are, I thought it might be fun to share some insights of from where we work on the Turing way.

I move to a green pod in our open plan office to get away from my desk and make clear that I'm not available for queries around my day to day job
imag0289 1

Decide on programming languages to focus on

This might mean that somewhere we will need to make a note of the skills we have within the team and open other languages up for contribution.


We will start with Python and R.

Consult with the DLR on Checklists/templates

Contacted Tobias Schlauch of the DLR regarding their checklists (2018-12-05).

Working through the checklists they've published, there is much that is relevant, but it is aimed quite specifically at software so principles will need to be adapted to apply to the broader set of materials that might be associated with a data science project.

I therefore reached out to inquire whether Tobias (or any collaborators) might have time for a chat to give their thoughts on similarities and differences between the work they've done and what we are trying to achieve.

Fix regular meeting time

2-4 on Wednesdays

Gitter: 28 Nov, 12 Dec, 9 Jan, 23 Jan
Zoom: 5 Dec, 19 Dec, 16 Jan, 30 Jan

Alternating slack & zoom meetings

  • KW to send link for zoom meeting
  • Document this in ways of working file #26
  • Create gitter channel for the project #33

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