Working across SDCs
- Published on Friday, 31 July 2020
BioDATEN is one of four science data centres (SDC) sponsored by the Ministry of Science, Research and Arts. Although each project addresses a different scientific community, there are cross-cutting topics that must be handled by each project. Such topics are e.g. legal aspects of research data, defining metadata for research data, education on research data management, and business models for research infrastructure. As all SDCs will work in these areas and will benefit from each other’s experiences, the coordination project bw2fdm organizes and hosts various working groups to tackle these issues. BioDATEN is an active member in all working groups so far and is happy to share experiences and to network with the other SDCs. BioDATEN is also part of the spokesperson group of two working groups.
BioDATEN is actively pursuing the development of a working business model required for sustainable operation. During an SDC working group meeting, BioDATEN presented a short overview on the actual state, that put together the insights from its partners, previous projects, and. The base for sustainable operation is the cooperation and agreement among partners. This entails the possibility of exchanged services and resources. From a certain point on this needs to be put into formal agreements signed by the partners in a consortium and its users. A challenge is the creation and definition of the proper legal framework. Optimally, not every consortium needs to create its own framework and agreements but can join larger structures. Those structures still need to be established. This is getting clarified in ongoing talks with the Ministry of Science, Research and Arts.
In the course of another SDC working group meeting, BioDATEN presented its decision process over the last year towards a suitable repository service for data publication. It finally came up with InvenioRDM after the analysis of existing solutions like DataVerse, Fedora/DSpace or iRods. During the decision process, BioDATEN was in exchange with various experts from university libraries, computer centres within the state of Baden-Württemberg, and with experts from various NFDI consortia like DataPLANT. These activities identified the shortcomings of traditional archiv and library solutions regarding Big Data as required e.g. by bwSFS and the BioDATEN communities. InvenioRDM features a modern extensible architecture and has already a significant userbase within the Zenodo community. Thus, a high probability of sustainable and long-term service can be expected. Additionally, InvenioRDM is a modular, Python-based open source data repository software initially developed by CERN which provides a modern REST-API. The highly modular architecture is micro-service oriented, scalable, and easily extensible. It provides the necessary broad support for storage backends like S3 object storage, filesystem or WebDAV. Indexing and search is based on the Elastic Search backend. InvenioRDM allows for the simple integration of external identity providers via oAuth 2.0/OpenID Connect and exposes an OAI-PMH interface for metadata harvesting and data exchange with other repository services.
Online-only workshop and hackathon on Nextflow and nf-core
- Published on Thursday, 28 May 2020
QBiC and the DKFZ announce their co-organized workshop on 13th to 17th of July 2020. The workshop includes a Nextflow tutorial and a nf-core hackathon with tutorials. Both events will be held online-only.
In case you are interested in attending the Nextflow workshop please find more information and register under the following link:
The Nextflow workshop is limited to 30 participants, so please only register if you plan to attend all sessions and follow the exercises. The sessions will also be live-streamed on YouTube, so it will be possible to follow the sessions via YouTube without previous registration.
To register for the nf-core tutorials and hackathon, and find out more information about the event, please follow this link:
DataPLANT NFDI – recommendation for funding
- Published on Tuesday, 19 May 2020
On 18th May 2020 we received the recommendation for funding of the DFGs NFDI panel of experts on the DataPLANT proposal. The BioDATEN Science Data Center is both involved in the role of fundamental plant researchers and in the role of service providers. In this decision, which has yet to be confirmed by the GWK (Gemeinsame Wissenschaftskonferenz) on 26th June 2020, DataPLANT was recommended for funding along with eight other consortia. For BioDATEN we are pleased that we have been able to successfully evolve our vision together with the other applicant institutions in the DataPLANT proposal. Further feedback on the proposal and the final decision is announced in August 2020 at the latest. As nine consortia are to be funded instead of the seven originally announced, it cannot yet be said whether this will have an impact on the planned budget. The planning will be accordingly cautious.
In order to advance the information of the community about the DataPLANT activities, there is now an initial website https://nfdi4plants.de/ available. Further, the DataPLANT speakers have set up a Twitter account @nfdi4plants. At the same time, the DataPLANT speakers have joined cross-cutting activities and are participating, for example, in the exchange on metadata in the NFDI at the beginning of July 2020.
The advice of the NFDI expert panel was based on the results of the evaluation and the comments of the applicants on the evaluation results. In order to be able to adequately evaluate the applications reviewed in seven expert colloquia, the NFDI expert panel also paid special attention to the framework for setting up the NFDI in a scientifically guided procedure.
(DvS, JK, HG)