Merge branch 'master' of github.com:eScienceLab/eScienceLab.github.io

Author: stain

.gitignore

@@ -8,4 +8,6 @@ Gemfile.docker
 *.orig
 \#*\#
 .bundle
-vendor
+vendor
+*/.DS_Store
+.DS_Store

_posts/2025-06-13-open-science-cookbook.md

@@ -0,0 +1,16 @@
+---
+layout: post
+title: "Chapter published in The Open Science Cookbook"
+date: 2025-06-13 13:30:00 +0100
+categories: announcements 
+---
+
+The American Library Association (ALA) and Association of College & Research Libraries (ACRL)have published the latest in their cookbook series, [The Open Science Cookbook](https://alastore.ala.org/open-science-cookbook). It includes a chapter (or "recipe") co-authored and led by Phil Reed (eScience Lab), titled "Spicy Data Skills Open Science Program With Library Carpentry" (pages 41-47).
+
+> The Open Science Cookbook provides a wide variety of lesson plans and learning activities for supporting collaborative, transparent, openly accessible, and reproducible research. In five sections, it has something for beginners to more advanced practitioners and for different audience sizes. 
+
+![The Open Science Cookbook](/images/posts_images/open-science-cookbook.jpg)
+
+The recipe describes how to adapt openly licensed materials from the [Library Carpentry](https://librarycarpentry.org/) curriculum to develop a data skills program that works for your individual institution. It is a collaboration between The University of Manchester, University of Leeds and Bradley University (USA).
+
+This book is also available as an [open access edition](https://www.ala.org/sites/default/files/2025-06/9798892553667.pdf) (CC BY licensed).

_posts/2025-07-20-ismb-eccb-2025.md

@@ -0,0 +1,64 @@
+---
+layout: post
+title: "eScience Lab presents at ISMB/ECCB 2025 in Liverpool, UK"
+date: 2025-07-17 17:33:00 +0100
+categories: announcements elixir
+---
+
+Professor Carole Goble, co-lead of eScience Lab, is joint chair of the [ISMB/ECCB 2025 conference](https://www.iscb.org/ismbeccb2025/home) (Intelligent Systems for Molecular Biology and European Conference on Computational Biology), hosted at ACC Liverpool, UK for the week of 20–24th July 2025. 
+
+The principal focus of this conference, run jointly by the International Society for Computational Biology ([ISCB](https://www.iscb.org/)) and [ECCB](https://eccb.org/), is the development and application of advanced computational methods to address biological problems. It brings together researchers from computer science, life sciences, mathematics, and related fields. 
+
+Several tracks are running in parallel, including the Bioinformatics Open Science Conference ([BOSC](https://www.iscb.org/ismbeccb2025/programme-agenda/scientific-programme/bosc)), special interest groups for Bio-Ontologies and Knowledge Representation ([BOKR](https://www.iscb.org/ismbeccb2025/programme-agenda/scientific-programme/bokr)) and [Education](https://www.iscb.org/ismbeccb2025/programme-agenda/scientific-programme/education), and [Bioinformatics in the UK](https://www.iscb.org/ismbeccb2025/programme-agenda/scientific-programme/uk).
+
+![ISMB/ECCB logo](/images/posts_images/ismb-eccb-2025-logo.png)
+
+eScience Lab members Munazah Andrabi, Nick Juty and Phil Reed are presenting talks and posters. If you are in attendance, do come and talk to us, or send us a message through the conference digital platform if you are attending virtually. 
+
+The [ELIXIR-UK](http://elixiruknode.org/) team is ready to meet you at ISMB. Learn about ELIXIR-endorsed services and the combined work of the people in our Node at [booth number 15](https://www.iscb.org/ismbeccb2025/exhibitors-sponsors/exhibitors), or pick up one of our flyers. ELIXIR-UK have partnered with our colleagues at [HDR UK](https://wwww.hdruk.ac.uk/), [BioFAIR](https://biofair.uk/) and [AI-BIO UK](https://aibio.ac.uk/) for a week full of engaging activities. 
+
+## FAIRDOM-SEEK (BOSC)
+
+- _Platform for FAIR data and research asset management_
+- **Talk**: Monday 21 July 2025, 16:40, room 03A
+- [fairdomseek.org](https://fairdomseek.org/)
+
+## Bioschemas (BOSC & BOKR)
+
+- _Applications of Bioschemas in FAIR, AI and knowledge representation_
+- **Talk**: Tuesday 22 July 2025, 15:00, room 03A <https://doi.org/10.5281/zenodo.16407474>
+- [bioschemas.org](https://bioschemas.org/)
+
+## RO-Crate (BOSC & BOKR)
+
+- _Capturing FAIR research outputs in bioinformatics and beyond_
+- **Flash talk**: Tuesday 22 July 2025, 15:20, room 03A
+- **Poster**: A-118, Monday 21 July 2025, 10:00–11:20 and 16:00–16:40 (viewable Mon and Tue) <https://doi.org/10.5281/zenodo.15849770>
+- [researchobject.org/ro-crate](https://www.researchobject.org/ro-crate/)
+
+## WorkflowHub (BOSC)
+
+- _A FAIR registry for workflows_
+- **Poster**: B-091, Tuesday 22 July 2025, 10:00–11:20 and 16:00–16:40 (viewable Mon and Tue) <https://doi.org/10.5281/zenodo.15861456>
+- [workflowhub.org](https://workflowhub.org/)
+
+## TeSS / mTeSS-X (Education)
+
+- _A federated, FAIR-aligned platform for distributed management and exchange of training resources_
+- **Poster**: D-037, Thursday 24 July 2025, 10:00–11:20 and 13:00–14:00 (viewable Wed and Thu) <https://doi.org/10.5281/zenodo.15835788>
+- [tess.elixir-europe.org/about](https://tess.elixir-europe.org/about)
+
+## RDMkit (Education)
+
+- _Research Data Management Toolkit for Life Scientists_
+- **Poster**: D-039, Thursday 24 July 2025, 10:00–11:20 and 13:00–14:00 (viewable Wed and Thu) <https://doi.org/10.5281/zenodo.15878117>
+- [rdmkit.elixir-europe.org](https://rdmkit.elixir-europe.org/)
+
+## Bonus: RSQKit
+
+- _Research Software Quality Toolkit (RSQKit) lists curated best practices, tools and resources for improving the quality of research software_
+- [everse.software/RSQKit](https://everse.software/RSQKit/)
+
+See an index of all the [eScience Lab ISMB/ECCB 2025 posters and presentations on Zenodo.](https://doi.org/10.5281/zenodo.15830546)
+
+[![Index of our flyers at ISMB/ECCB 2025](/images/posts_images/ismb-eccb-2025-flyers.png)](https://doi.org/10.5281/zenodo.15830546)

_posts/2025-07-21-fairdom-seek-1.17.0.md

@@ -0,0 +1,59 @@
+---
+layout: post
+title:  "FAIRDOM-SEEK 1.17.0 Released"
+date:   2025-07-21
+categories: announcements release
+---
+
+![SEEK](/images/logo/fairdom-seek-logo-horiz.svg)
+
+We are pleased to announce a new version of [FAIRDOM-SEEK](/products/seek/) – [version 1.17.0](https://docs.seek4science.org/tech/releases/#version-1170)
+
+This is a large new version, and highlights include:
+
+* A period of maintenance, doing various updates and spring cleaning, including:
+  * Rails upgrade to 7.2
+  * Ruby upgrade to 3.3
+  * Updates of dependencies.
+  * Addressing hard to maintain code and cleaning up technical debt.
+* Integrated Institutions with [Research Organization Registry (ROR)](https://ror.org/)
+  * When either editing or creating, Institutions can be searched via the ROR api and automatically populated.
+  * Linking an Institution to an ROR persistent identifier, either through searching or manually.
+  * Added a field for Department, for cases where more specific details are needed.
+  * Update the API to include ROR details.
+  * Institutions can still be registered manually, without ROR, for cases where it is missing from the registry.
+* Extended support for [Fair Data Station (FDS)](https://fairds.fairbydesign.nl/)
+  * Extended Metadata types and Sample types can now be easily created from an example output from FDS.
+  * Asynchronous imports and updates using a background job, with current status displayed, to support large cases which would otherwise timeout.
+  * Retaining a history of the FDS files used to import or update.
+  * recognises disabled EMT's.
+* Further integration with the ELIXIR Norway [NeLS](https://elixir.no/Services-bak/nels) system, to support more features that can be done directly in SEEK:
+  * Browsing datasets, subtypes, files and folders.
+  * Downloading files.
+  * Creating datasets.
+  * Creating folders.
+  * Uploading files.
+  * Updates required to use the latest NeLS API.
+* [WorkflowHub](https://about.workflowhub.eu/) enhancements:
+  * Git related api and documentation improvements.
+  * Updates to the [EDAM](https://edamontology.org/page) controlled vocabularies to synchronise with their latest ontology - for topics, operations, data types and data formats.
+* [DataHub](https://fair-dom.org/fairdom-in-use/Datahub) enhancements:
+  * Dynamic table fixes and improvements.
+  * Improve non-text attributes (e.g. related DataFiles, Samples) in Experiment view.
+  * Fix to linking Sample types to Assay Streams.
+* Added the ability to edit the title and description for ISA snapshots.
+* Where SEEK is used together with a triple store, the RDF registered now correctly sets the data type, e.g. for datetime.
+* A rework of exporting a list of publications, with a fix to correctly apply the visible filters applied.
+* A configurable maximum number of filters (default 5) that can be applied by anonymous users, to reduce overheads from AI bots.
+* Fixes related to deleting contributors.
+* Fix to the Restart Background Workers feature available to administrators, as well as clearer indication of what are running and how many there should be.
+* Admin feature to list all registered users with profiles.
+
+
+... and much more.
+
+Details on installing SEEK can be found in our Documentation, at [https://docs.seek4science.org/get-seek.html](https://docs.seek4science.org/get-seek.html) – including running with [Docker](https://www.docker.com/).
+
+The upgrade guide can be found in the usual place at [https://docs.seek4science.org/tech/upgrading.html](https://docs.seek4science.org/tech/upgrading.html).
+
+Details on upgrading for Docker can be found on the page [https://docs.seek4science.org/tech/docker/docker-compose.html](https://docs.seek4science.org/tech/docker/docker-compose.html).

_projects/climate-adapt.md

@@ -0,0 +1,34 @@
+---
+layout: project
+name: Climate-Adapt4EOSC
+title: Climate-Adapt4EOSC
+path: climate-adapt.html
+collection: projects
+description: 4 year EU-funded project to drive Open Science and Data Innovation for Greater Climate Resilience
+logo: climate-adapt4eosc.svg
+website: https://climate-adapt4eosc.eu/
+start_date: 2025-01-01
+expired: false
+duration: 48 months
+project_reference: https://cordis.europa.eu/project/id/101188248
+---
+
+The newly launched [Climate-Adapt4EOSC project](https://climate-adapt4eosc.eu/) joins the expanding European Open Science Cloud (EOSC) ecosystem, with a particular focus on climate change adaptation. Bringing together 18 partners from 9 countries, the initiative aims to advance open science and data-driven innovation to strengthen climate resilience and climate adaptation effots. 
+
+Over the next four years, Climate-Adapt4EOSC will develop fully interoperable digital services, FAIR (Findable, Accessible, Interoperable, and Reusable) data resources, and advanced analytical tools, equipping researchers, policymakers, and stakeholders with cutting-edge solutions for data retrieval, processing, and analysis to drive more effective climate adaptation efforts.
+
+
+## Context
+
+Adaptation to climate change has become a central focus for researchers across various fields, including climate science, environmental science, urban planning, information science and social science, to support policymakers in making informed decisions to build a climate-prepared and resilient society. The major challenges in achieving this goal are: 
+
+1. Lack of seamless interaction between platforms, data spaces, and users  
+2. Poor data interoperability as well as service interoperability  
+3. Lack of infrastructural support for generating FAIR (Findable, Accessible, Interoperable, Reusable) data  
+4. Legal barriers hindering access to data
+
+**Climate-Adapt4EOSC** aims to address these challenges by creating an **EOSC-centred collaborative research environment** that integrates existing EOSC data and services while expanding them with new capabilities. These enhancements include **interoperability, FAIRification, Open Data publication of research results, data adaptation, format compliance, mapping, and entity matching**, enabling seamless data interaction and the development of advanced services such as **Big Data analytics for climate risk assessments**.
+
+A key innovation of the project is the development of a **climate change adaptation ontology** and an **EOSC Climate-Adapt Knowledge Graph**, designed to enhance **findability, accessibility, tracking, and life cycle management** of diverse research outputs, including **datasets, scientific publications, methodologies, code, software packages, and analytical tools**.
+
+Additionally, Climate-Adapt4EOSC is introducing **three innovative services** that will support the **EU Mission on Climate Change Adaptation** and the **European Green Deal**. These services are designed to be **demonstrated across five EU countries**, ensuring practical implementation and impact in real-world climate adaptation efforts.

images/posts_images/ismb-eccb-2025-flyers.png

@@ -67,7 +67,8 @@ staff:
   img: no-photo.png
   role: Research Associate
 - name: Michael Sparks
-  img: no-photo.png
+  orcid: 0009-0001-3059-0000
+  img: michael-sparks-sm.jpg
   role: Senior Research Software Engineer