Services for the European Open Science Cloud

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Introduction to Jupyter and Open Science - Training

Friday, September 27, 2019 - 09:00 to 18:00

EGI Notebooks is a new service from the EGI e-infrastructure collaboration, providing a user-friendly and highly flexible Jupyter-based web environment for researchers to develop and execute data analysis and visualisation ‘notebooks’. Notebooks can contain programming codes in various languages, HTML scripts, dynamic visualization and equations as well as images and explanatory text to provide guidance and context for the data analysis. Through notebooks users can easily share concepts, ideas and working applications, capturing the full analytical methodology, connections to data and descriptive text to interpret those data. With the Binder ‘extension’ of Jupyter one can turn a Github repository with Jupyter notebooks into an executable environment, making code, visualisation and documentation immediately reproducible and reusable by anyone, anywhere. Jupyter and Binder are becoming pillars for Open Science. 

Notebook training at IBERGRID 2019 conference

Monday, September 23, 2019 - 09:00 to Thursday, September 26, 2019 - 18:30

The 10th Iberian Grid Conference will take place in Santiago de Compostela, from Monday 23rd to Thursday 26th of September (see also event in the Ibergrid webpage).

The call for Abstract is open (Extended deadline: 7th of July).

All the contributions will have the opportunity to be published as Conference Proceedings. After the conference, accepted contributions will be invited to submit a full manuscript describing the content of the oral presentation or poster. The manuscripts will go through a peer review process.

CODATA-RDA 2019

Monday, August 5, 2019 - 09:00 to Friday, August 16, 2019 - 13:00

The CODATA-RDA Research Data Science Summer School provides training in the foundational skills of Research Data Science.  Contemporary research – particularly when addressing the most significant, transdisciplinary research challenges – cannot be done effectively without a range of skills relating to data. This includes the principles and practice of Open Science and research data management and curation, the use of a range of data platforms and infrastructures, large scale analysis, statistics, visualisation and modelling techniques, software development and annotation and more. We define ‘Research Data Science’ as the ensemble of these skills.

The material covered here is fundamental to all areas of Data Science and hence open to researchers from all disciplines that deal with significant amounts of data. The focus is provide a practical introduction to these topics with extensive labs and seminars.

TOPICS:

  • Open Science
  • Introduction to Unix Shell
  • Programming for Analysis
  • Git
  • Research Data Management
  • Author Carpentry
  • Data Visualisation
  • Information Security
  • Machine Learning
  • Computational Infrastructures

SOCS 2019: Third International School on Open Science School

Monday, September 16, 2019 - 08:00 to Friday, September 20, 2019 - 19:00

The School is multi-disciplinary and targeted at postgraduate researchers including bachelor degree or equivalent in fields such as physics, statistics, computer science, computer vision, biology, medicine,engineering working at any research institute, with experience in data analysis, in computing or in related fields.

The Third School on Open Science Cloud will be held in Bologna, 16-20 September 2019 and is organised by INFN, University of Perugia and University of Bologna.

FREYA midway webinar

Thursday, May 9, 2019 - 15:30 to 17:00

The aims of this FREYA webinar are manifold:

  • Present the results achieved so far
  • Discuss the next developments
  • Discuss how research communities can engage and collaborate with FREYA

 

Webinar programme

00:00:00 Welcome - Francesca Morselli (DANS)

00:04:05 Introduction to FREYA - Simon Lambert (STFC) 

00:11:25 Introduction to the PID Graph - Robin Dasler (DataCite)

00:32:20 PID Graph Demonstrators - Tina Dohna (PANGAEA), Christine Ferguson (EMBL-EBI), Simon Lambert (STFC)

00:53:00 Requirements gathering for new PID Types - Christine Ferguson (EMBL-EBI)

01:08:36 FREYA Engagement and Training - Frances Madden (British Library)

01:15:20 Discussion - Francesca Morselli (DANS)

 

(To view the Webinar: Click on the image below)

 

 

EGI Jupyter Notebooks Tutorial

Tuesday, April 2, 2019 - 11:15 to 17:30

EGI Notebooks is a new service from the EGI e-infrastructure collaboration, providing a user-friendly and highly flexible Jupyter-based hosted environment for researchers to develop and share data analysis and visualisation ‘notebooks’. Notebooks can contain programming codes in various languages, HTML scripts, dynamic visualization and equations as well as images and explanatory text that provide guidance and context for the captured data analysis workflows. Through the notebooks users can easily share concepts, ideas and working applications, containing the full analytical methodology, connections to data sources, visualizations, and descriptive text to interpret those data. With the Binder ‘extension’ of Jupyter one can turn a Github repository with Jupyter notebooks into an executable environment, making code, visualisation and documentation immediately reproducible and reusable by anyone, anywhere. Jupyter and Binder are becoming pillars for Open Science.

Security Workshop at ISGC2019

Sunday, March 31, 2019 - 09:00 to 17:30

EGI CSIRT provides operational security to distributed compute infrastructures coordinated by EGI. One of EGI CSIRTs activities is to assess the overall incident response capabilities, which is done through security exercises, so called Security Service Challenges (SSCs). Operational security in an agile environment with different job management systems, logging information at different locations and entities coordination of the involved security teams is key.

The used services need to provide sufficient traceability of user actions as well as interfaces to the systems that offer methods needed to contain an incident, i.e. suspending of credentials found in activities violating approved security policies.

In an assessment of the overall incident response capabilities one of the core aspects will be the junctions between the acting security teams, each having a different view on the situation and different tools available to contain the incident.

To be able to run Security Service Challenges (SSCs) targeting multiple Resource Centres (RCs) and Workload Management Systems (WMS) a framework, the SSC-Monitor, was developed, that allows for central management of the malicious activities as well as for recording and evaluating the expected actions of the participating CSIRTs. This SSC-Monitor was already used for earlier SSCs. While large parts of this framework remains constant several adoptions are needed to implement the Virtual Organisations WMS. Also to be able to measure the incident response of the participants various metrics have to be developed and made available to the SSC-Monitor, and in order to realistically hide the malicious activities, alternative methods for getting the payload to the compute nodes had to be researched and implemented into the SSC-Monitor. Details are presented in separate contribution to this conference.

In the SSC presented here we focused on the WMS Dirac developed and used by the LHCB VO. Incidents involving a VOs WMS require actions and information flow from/to the VOs security team, the RCs security teams and, eventually, additional entities providing authentication frameworks. The information flow and the orchestrated incident response activities are coordinated by EGI CSIRTs Incident Response Task Force (IRTF).

To assess the readiness of the above mentioned security teams, EGI CSIRT together with the VO LHCB created a realistic incident scenario, where valid user credentials are used to submit jobs to the infrastructure using LHCBs workload management system DIRAC as well as using generic services available for job submission directly to the sites.

In this presentation we will show the detailed incident scenario created by the SSC-Monitor, the expected actions described in the incident response procedures as well as the efficiency of the actions described in the developed metrics.

OpenAIRE - EOSC-hub webinar “Data Privacy and Sensitive Data Services”

Thursday, December 6, 2018 - 14:00

The need for professionally managing sensitive data is growing in science, therefore we invite you to join our webinar on good practices, tips & tricks, as well as cloud-based services for researchers.

Presenters:

  • Iryna Kuchma (OpenAIRE) and Gergely Sipos (EOSC-Hub, EGI Foundation) will introduce the projects
  • Elli Papadopoulou (OpenAIRE) will speak about Data Privacy
  • Abdulrahman Azab (EOSC-Hub, University of Oslo) will talk about Sensitive Data Services. 

 

NGSchool 2018

Sunday, September 16, 2018 - 09:00 to Sunday, September 23, 2018 - 17:00

#NGSchool (Next Generation School) is a platform to share the expertise in the field of Next Generation Sequencing Data Analysis and general Bioinformatics. Our aim is to deepen and broaden knowledge and skills in Bioinformatics of all participants. Our activities are dedicated to young researchers with at least basic background in biology/math/informatics that are willing to improve their Bioinformatics and NGS data analysis skills. We select participants primarily from less developed countries such as Central & Eastern European Countries.

So far we have organised 3 summer schools and co-organised number of local and satellite eventsSummer School in Bioinformatics & NGS Data Analysis is our flagship annual event. It connect experts and early stage researchers working with NGS data, in order to exchange their expertise and learn one from another. In addition, starting from 2018, we started organising number of local events.

Why is it important?

We are living in very fascinating moment in the history, so-called Genomics Era, when obtaining the whole genome sequence of any individual becomes trivial task at affordable cost. Personalised medicine, a health-care system in which medical decisions and health-care products are tailored for the individuals based on their predicted response or risk of disease, is just around the corner. It is crucial to train the future experts, that will drive this revolution also in our region.

How many users does usually partecipate?

Our events are attended by 20-70 people, majority of those are PhD students and Post-docs, but researchers at all career stages are welcome! Summer schools usually welcome 40-60 people, of those 1/3 are speakers. For example, #NGSchool2018 will be attended by 60-70 participants including 20-30 speakers/hackathon mentors.

 

 

Second International PhD School on Open Science Cloud

Monday, September 17, 2018 - 08:00 to Friday, September 21, 2018 - 18:10

The 2018 school is devoted to "Predictive Models" and, as the previous edition, will consist of a serie of lectures, seminars and hands-on sessions on several interconnected topics, as:

  • The world of Big Data 
  • ​Data acquisition, managing and handling 
  • Machine and Deep Learning 
  • Computing models and data analysis 
  • Cloud Infrastructures 
  • ML Research to Business 

More in details, Data Management will be explored in terms of the full potential for Cloud paradigma exploitation especially from the infrastructural point of view, presenting the state of the art, contemporary issues and challenges for future. Few realistic examples will be used to drive the discussion: Big Data and high throughput requests, streaming and security. Machine Learning will be also discussed in terms of Predictive Models, investigating specific data structures for ML technologies. 
The school is organised to serve scientific communities: High Energy Physics, Material Simulation, Meteorological and Environmental studies, etc.

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