GBIF Cloud Data space
Environment Data Space Provider
16th-17th February 2021
Rui Figueira, GBIF Portugal
Francisco Pando, GBIF Spain
www.egi.eu
@EGI_eInfra
The work of the EGI Foundation
is partly funded by the European Commission
under H2020 Framework Programme
EGI: Advanced Computing for Research
Outline
@EGI_eInfra
www.egi.eu
16-17/02/2021
2
May 6, 2019 - News headlines - IPBES Global Assessment Preview
Background about the scientific community
@EGI_eInfra
www.egi.eu
16-17/02/2021
3
May 6, 2019 - News headlines - IPBES Global Assessment Preview
GBIF mediated data essential to many of the scientific papers and indicators cited in the IPBES
Background about the scientific community
@EGI_eInfra
www.egi.eu
16-17/02/2021
4
Global Biodiversity Information Facility (GBIF)
GBIF—the Global Biodiversity Information Facility—is an international network and research infrastructure funded by the world’s governments and aimed at providing anyone, anywhere, open access to data about all types of life on Earth.
BY THE NUMBERS
15 Feb 2021
Species occurrence records
1,655,551,423
Datasets
56,432
Country �participants
62
Organizational �participants
39
Publishers
1,644
Average records served per month (2019)
39.8 billion
Average monthly user session (Jan-Jun 2019)
214,876
Background about the scientific community
All environments
Land
Sea
All ecologies
Interactions
Air
Invasive
Pollution
Many uses
Conservation
Support decision
Research
All environments
All ecologies
Many uses
GBIF mediated data:
@EGI_eInfra
www.egi.eu
16-17/02/2021
7
Invasive species
Yellow-legged Asian hornet (Vespa velutina) expansion in Europe
2005
Invasive species
Yellow-legged Asian hornet (Vespa velutina) expansion in Europe
2010
Invasive species
Yellow-legged Asian hornet (Vespa velutina) expansion in Europe
2015
Invasive species
Yellow-legged Asian hornet (Vespa velutina) expansion in Europe
2019
Conservation in Europe - directives
Habitat and Bird directive reports, while done nationally, require regional approaches
Data requirements / biogeographic levels / conservation / legislation
Challenges: biodiversity research community
Community challenges
Need for front-office easy to use applications that unleash power of data and computational resources
Global Regional National Local
GBIF data for global to local analysis
GBIF.org - global portal
National/regional portals
High-level architecture of the Data Space
Living Atlases shared data infrastructure
PT
ES
region 1
theme 1
HUB 1
HUB 2
...
HUB x
invasive species, endangered species, Iberian floras and faunas...
Living Atlases - sharing infrastructure at Iberian level
@EGI_eInfra
www.egi.eu
16-17/02/2021
15
BY THE NUMBERS
Species occurrence records
44.4 + 11.3 = 55.7 M
Datasets
340 + 200 = 540
Publishers
124 + 23 = 147
IN IBERIA
High-level architecture of the Data Space
in the scope of and
data
Infrastructure
@EGI_eInfra
www.egi.eu
16-17/02/2021
17
High-level architecture of the Data Space
image by David Martin (ALA)
Atlas of Living Australia (ALA) architecture
@EGI_eInfra
www.egi.eu
16-17/02/2021
18
High-level architecture of the Data Space
PostgreSQL
Languages | Web applications | Databases | Indexing | Web server | Implementation VM instances |
| Java Web Applications WAR | | | | |
@EGI_eInfra
www.egi.eu
16-17/02/2021
19
Technical requirements
AAI: GBIF solution relies on OpenID connect
Platform
IaaS
Provider
Research Platforms
Operators
Users of Generic Platforms
and client tools
Accounting, Monitoring,…
Iberian Distributed Computing Infrastructure
Federated Cloud
@EGI_eInfra
www.egi.eu
16-17/02/2021
20
Capacity requirements
Different Flavors
~24 Running Instances
>800 VCPUs
2 TB
Internal Disk
> 20 TB
Volume Disk
> 1.5 TB
Memory
@EGI_eInfra
www.egi.eu
16-17/02/2021
21
Timeline
Provide a timeline for the implementation phase.
Timeline should include:
Current
Individual databases for GBIF_ES and GBIF_PT
First tests of the �Iberian Pilot
M12
Production use
M18
Release in EOSC
M18
@EGI_eInfra
www.egi.eu
16-17/02/2021
22
Training for external users
Planned workshops for 2021 (GBIF Spain). All online via http://elearning.gbif.es (service registered in the EOSC Marketplace)
Online workshop: Publication of biodiversity data from polar regions
Tentative dates: May 2021
Online workshop: Standardization and publication of ecological data within the framework of the LTER Spain network
Tentative dates: June 2021
Iberoamerican online workshop: Collection databases and Genbank
Dates: 2nd semester (September / October)
Teaching hours: 30 hours
IV Online Workshop: Management, visualization and analysis of data in ecology with R (initiation level)
Dates: to be defined
30 teaching hours
III GBIF.ES online workshop: Quality in biodiversity databases
Dates: to be defined
30 teaching hours
Online workshop: Use of the GBIF Spain biodiversity data portal
Dates: to be defined
30 teaching hours
@EGI_eInfra
www.egi.eu
16-17/02/2021
23
Thank you!
@EGI_eInfra
www.egi.eu
16-17/02/2021
24