Sea EU Data Literacy Course

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Project Phase Launch

Monday, 27th March 2023 at 4:00pm CEST

Programme

All times are in Central European Summer Time (CEST)

4:00pm	Introduction to the Project Mode Alfredo Izquierdo González (BoS member, University of Cádiz)
Project proposal presentations
4:15pm	Project 1 *Analysis of spatial and temporal wave energy flux variability along the southern coast of Europe and northern Africa or in the Baltic Sea* Mentors Aleksandra Cupiał (University of Gdansk) Tomás Fernández Montblanc (University of Cádiz) Marta Misiewicz (University of Gdansk)
4:30pm	Project 2 *Extracting characteristic patterns of marine variables using machine learning* Mentors Frano Matić (University of Split) Carlos Román (University of Cádiz)
4:45pm	Project 3 *Characterizing the Mediterranean Sea climate: From daily to interannual time-scales* Mentors Alfredo Izquierdo González (University of Cádiz) Aleksandra Dudkowska (University of Gdansk) Flávio Martins (University of Algarve)
5:00pm	Questions
5:30pm	Closure

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Schedule for remote practical sessions

All times are in Central European Time (CET)

Practical session 1	Monday 20th February 2023	4:00pm-7:30pm
Practical session 2	Thursday 23rd February 2023	4:00pm-7:00pm
Practical session 3	Monday 27th February 2023	4:00pm-7:00pm
Practical session 4	Thursday 2nd March 2023	4:00pm-7:00pm
Practical session 5	Monday 6th March 2023	4:00pm-7:00pm
Practical session 6	Thursday 9th March 2023	4:00pm-7:00pm
Practical session 7	Monday 13th March 2023	4:00pm-7:00pm
Practical session 8	Thursday 16th March 2023	4:00pm-7:00pm
Practical session 9	Monday 20th March 2023	4:00pm-7:00pm

Schedule for BIP practical sessions at University of Cádiz

Important information

Monday, 28th November 2022
8:30am - 9:00am	Welcome session
9:00am - 12:00pm	Practical session 1 Reliable oceanographic data sources: Introduction to sea state, wind wave and wind wave climate characterization. Tomás Fernández Montblanc, Alfredo Izquierdo, Aleksandra Dudkowska
12:15pm - 1:15pm	Practical session 2 Model and satellite CMEMS Sea Surface Temperature data. Adam Gauci, Audrey Zammit, Alfredo Izquierdo
1:15pm - 2:15pm	Lunch
2:15pm - 4:15pm	Practical session 2 (cont) Model and satellite CMEMS Sea Surface Temperature data. Adam Gauci, Audrey Zammit, Alfredo Izquierdo
5:00pm	Cádiz theatrical walking tour Meeting point: main entrance to the City Hall. Approx. duration: 90 min.
Tuesday, 29th November 2022
8:30am - 11:30am	Practical session 3 Computing satellite-derived bathymetry in shallow areas in SNAP, QGIS or ArcGIS. Adam Gauci, Audrey Zammit, Jesús Gómez-Enri
11:45am - 1:15pm	Practical session 4 Quality control and visualization data on Ocean Data View (using data from the World Ocean Database or EMODnet). Gabriela Gic-Grusza, Anna Panasiuk, Aleksandra Cupiał The materials used in this practical session have been developed by Prof. Julia Gottschalk (Institute of Geosciences, Kiel University)
1:15pm - 2:15pm	Lunch
2:15pm - 2:45pm	Talk show with coffee 1
2:45pm - 4:15pm	Practical session 4 (cont) Quality control and visualization data on Ocean Data View (using data from the World Ocean Database or EMODnet). Gabriela Gic-Grusza, Anna Panasiuk, Aleksandra Cupiał The materials used in this practical session have been developed by Prof. Julia Gottschalk (Institute of Geosciences, Kiel University)
Wednesday, 30th November 2022
8:30am - 11:30am	Practical session 5 Oil Spill Detection from space with SENTINEL-1. Jesús Gómez-Enri, Adam Gauci, Frano Matić
11:45am - 1:15pm	Practical session 6 From data formats to practical use of water column depth data. Aleksandra Cupiał, Wojciech Brodziński, Gabriela Gic-Grusza, Anna Panasiuk
1:15pm - 2:15pm	Lunch
2:15pm - 3:45pm	Practical session 6 (cont) From data formats to practical use of water column depth data. Aleksandra Cupiał, Wojciech Brodziński, Gabriela Gic-Grusza, Anna Panasiuk
4:00pm	INNOVAZUL Student Blue Space Students have a prominent place in this edition of InnovAzul. This is the best place for them to come into contact with the business world. Information and registration at https://innovazul.es/en. Remember, for accessing INNOVAZUL you have to be registered (free of charge). Please, select as registration event STUDENT BLUE SPACE on 30th November on the registration form.
Thursday, 1st December 2022
9:00am	Departure by bus from Cádiz
10:00am - 12:30pm	Cape of Trafalgar. Beach, lighthouse and tombolo of Trafalgar. Coastal and sedimentary dynamics by Tomás Fernández Montblanc. Oceanography of the Strait of Gibraltar by Alfredo Izquierdo.
1:30pm - 2:30pm	Lunch (picnic) at Bolonia Beach
2:30pm - 4:00pm	Visit to Bolonia sand dune. Meteorology of the Strait of Gibraltar by Carlos Román and Alfredo Izquierdo. Presentation of the research project "Vulnerability of littoral cultural heritage to environmental agents: the climate change impact" by Tomás Fernández Montblanc and Alfredo Izquierdo.
4:00pm - 6:00pm	Visit to the Baelo-Claudia Roman city ruins and museum.
Friday, 2nd December 2022
8:30am - 11:30am	Practical session 7 Sea-level time series: detecting processes, stationarity and trends. Frano Matić, Alexandra Dudkowska, Alfredo Izquierdo
11:45am - 1:15pm	Practical session 8 Data Transformation/Integration with ETL tool - FME from SAFE. Maciej Markowski, Aleksandra Dudkowska, Wojciech Brodziński
1:15pm - 2:15pm	Lunch
2:15pm - 2:45pm	Talk show with coffee 2
2:45pm - 4:15pm	Practical session 8 (cont) Data Transformation/Integration with ETL tool - FME from SAFE. Maciej Markowski, Aleksandra Dudkowska, Wojciech Brodziński
4:15pm	Closure and farewell

Schedule for the introductory lectures

Lecture 1	Monday 24th October 2022	5:00pm-6:30pm (CEST)
Lecture 2	Wednesday 26th October 2022	5:00pm-6:00pm (CEST)
Lecture 3	Friday 28th October 2022	5:00pm-6:30pm (CEST)
Lecture 4	Friday 4th November 2022	5:00pm-6:30pm (CET)
Lecture 5	Monday 7th November 2022	5:00pm-6:30pm (CET)
Lecture 6	Wednesday 9th November 2022	5:00pm-6:30pm (CET)
Lecture 7	Monday 14th November 2022	5:00pm-6:30pm (CET)
Lecture 8	Friday 18th November 2022	5:00pm-6:00pm (CET)
Lecture 9	Monday 21st November 2022	5:00pm-6:30pm (CET)
Lecture 10	Wednesday 23rd November 2022	5:00pm-7:00pm (CET)

Project Mode Final Session

Thursday, 5th May 2022 at 5:00pm CEST
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INTRODUCTORY LECTURES PROGRAMME

Session	University	Title	Duration	Key points of the lecture	Resources
Lecture 1 24th October 2022	University of Malta Aldo Drago	Introduction to Marine Data	1.5 hrs	Why do we need marine data? How do we measure and model the sea? Different types of marine data: physical, biogeochemical, ecological; models; observations (in situ + remote) What is operational oceanography? Technologies used to produce marine data Temporal and spatial constraints in data collection and interpretation; how to measure and interpret data avoiding pitfalls The value addition chain of data; downstream services and data product delivery
Lecture 2 26th October 2022	University of Cadiz Tomás Fernández Montblanc	Reliable oceanographic data sources: Met-ocean data sets: climate, reanalysis, forecast and in situ data	1 hr	Met-ocean data: types and characteristics Types of products PHYS CMEMS Types of products INSITU CMEMS "Data lexicon": Quality information document and product user manual
Lecture 3 28th October 2022	University of Malta Adam Gauci	Online Data Portals	1.5 hrs	What oceanographic data is freely available? How can this be accessed? Demonstration of professional online data interfaces to visualise in near-real-time ocean data products Portals from where numeric data derived from in-situ measurements, remote sensing, and forecasting models, can be downloaded Demonstration of visualisation software including Panoply, the Sentinel Application Toolbox (SNAP), and QGIS, that can be used to process downloaded data Simple data processing techniques to added-value products (such as colour composites, vegetation and water quality indices, etc…)
Lecture 4 4th November 2022	University of Algarve Flávio Martins	Introduction to Operational Modelling	1.5 hrs	What is a model? Transport of a property: Eulerian vs Lagrangian Discretization in space and time Model limitations Initial and boundary conditions Downscaling Types of models Operational modelling cycle Data assimilation, analysis and reanalysis Model validation
Lecture 5 7th November 2022	IODE Peter Pissierssens *** EMODnet Jan-Bart Calewaert	International Oceanographic Data and Information Exchange (IODE) *** An introduction to Europe’s in situ open data service by the European Marine Observation Data Network (EMODnet)	1.5 hrs	Introduction to IODE and UN Ocean Decade and its data chapter Introduction to EMODnet
Lecture 6 9th November 2022	Université de Bretagne Occidentale Sally Close	Accessing and transforming data	1.5 hrs	Brief introduction to web scraping and API Brief introduction to data wrangling Interacting with data servers part 1 (openDAP) Introduction to cloud storage and cloud computing
Lecture 7 14th November 2022	University of Cadiz Carlos Román Cascón	Fundamentals and examples of marine data analysis	1.5 hr	Statistical methods Time series analysis Spatial analysis of data fields Climatological assessments
Lecture 8 18th November 2022	University of Malta Joel Azzopardi	Applying AI to Oceanography	1 hr	Introduction What is Artificial Intelligence? Demystifying the hype surrounding AI AI needs huge amounts of data to operate, and oceanographic data is readily available Overview of different AI applications used in oceanography
Lecture 9 21st November 2022	CAU Kiel Danyial Kazempour / Peer Kröger	Managing and Processing (Big) Scientific Data	1.5 hrs	Managing (Big) Scientific Data IT tools and systems Relational Database Management Systems Data model Basic properties of transactions in RDMS Geo-Information systems Spatial, temporal, and spatio-temporal data models NoSQL Databases Data models Cap-theorem (consistency and availability) Processing (Big) Scientific Data Data Preprocessing Overview on Distributed Data Processing Hadoop, map-reduce Spark Flink
Lecture 10a 23rd November 2022	University of Split Hrvoje Kalinić	Introduction to learning algorithms, neural networks and clustering	1 hr	What is unsupervised learning? Distinction between clustering and classification Cluster properties and basic approaches to cluster analysis Examples of some algorithm and applications What is supervised learning? Distinction between classification and regression problem Learning algorithms and why are the introduced Learning as an optimization problem. Gradient descent. Local optimum Linear separability and complexity of neural network architecture Simple (shallow) neural network implementation
Lecture 10b 23rd November 2022	University of Gdansk Aleksandra Dudkowska	Applying AI to Oceanography: case studies	1 hr	Case studies and demonstration of the different AI/ML models used in Oceanography

PROGRAMME FOR REMOTE PRACTICAL SESSIONS

Session

University

Title

Duration

Highlights on Practical

Resources

Practical Intro
20th February 2023

University of Malta
Adam Gauci

Introduction to practical sessions

30 min

House keeping rules to ensure smooth running of practical sessions

Practical 1
20th February 2023

University of Malta
Adam Gauci & Audrey Zammit

Model and satellite CMEMS sea surface temperature data

3 hrs

The Copernicus Marine Environment Monitoring Service (CMEMS) is an EU information service based on satellite earth observation and in-situ data. CMEMS provides state-of-the-art analyses and forecasts of oceanographic parameters which offer an unprecedented capability to observe, understand, and anticipate marine environment events. CMEMS offers unique access to oceanographic products through an online catalogue. In this project the students will be shown how to:

Log in the Marine Copernicus Portal.
Download daily averaged sea surface temperature (SST) data from a high-resolution model that is available for ten consecutive days.
Download satellite observed SST data (L4) generated over the same domain and ten-day period.
Load and visualise the model and satellite netcdf files in Panoply.
Identify a grid cell in the model and satellite datasets, and extract the SST time series over the ten days being considered.
Generate a time series plot that overlays the SST predicted by the model and observed by the satellite over the ten-day period being considered.
Generate a scatter plot to visualize the correlation between the model and the satellite.
Compute the Mean Square Error between the model and satellite SST.

Practical 2
23rd February 2023

University of Split
Frano Matić & Jadranka Šepić

Sea-level time series: detecting processes, stationarity and trends

3 hrs

Students will learn how to detect stationarity and trends in oceanographic time series. The analysis will be focused on sea-level time series.

Students will be introduced to various open access sea-level data repositories and given information on how to choose the best data for their research
Students will download sea-level data from the selected repository
Students will plot the sea-level data and visually assess it
Students will then be familiarized with different ocean processes detectable in sea-level time series and learn how to recognize and extract these processes by filtering procedures
Students will be introduced to basic statistical parameters, the normal distribution, Student's t-test and linear regression
Students will estimate stationarity and trends of selected component of downloaded sea-level time series and asses the significance of estimated trends

Students will estimate trends for different time windows and evaluate stationarity of trends

Practical 3
27th February 2023

Université de Bretagne Occidentale
Sally Close

From in situ observations to gridded data

3 hrs

Practical session to enable students manipulate in situ observations and transform the input data into a gridded product. Through this practical, they will also discover how data availability affects the accuracy of the gridded output, and see how this problem can: (1) particularly affect certain undersampled regions of the ocean, and (2) limit the time scales that can reasonably be resolved.

Argo data will be used as an example. The students will aim to create weekly, monthly, annual and multiannual gridded products of temperature / salinity for different regions of the ocean with varying levels of data coverage.

A set of instructions will be provided so that the students can achieve their objective using a “no-programming” option: students who do not have any experience in programming can complete the practical by firstly using the Coriolis web interface to select and download the data, and then by using Ocean Data View to visualise and transform the data

Practical 4
2nd March 2023

University of Gdansk
Aleksandra Cupiał, Wojciech Brodziński & Gabriela Gic-Grusza

From data formats to practical use of water column depth data

3 hrs

This session will include two sub-sessions.
Firstly, students will learn how to manipulate different data formats (txt, geoTiff, NCDF). During this task, emphasis will be put on the importance of selecting subsets of data (both in temporal and spatial scale) and its influence on final analysis.
Secondly, students will learn the basic aspects of spatial data interpolation and discover how different methods of interpolation impact on data accuracy of the gridded output. In this part, water column depth data will be used and some aspects of the modelling of bottom topography will be emphasized.
Sets of instructions will be provided so that the students can achieve the same objective using Jupyter Notebook / Python programming.

Practical 5
6th March 2023

CAU Kiel Julia Gottschalk	a. Marine data visualization and analysis with Ocean Data View (ODV)	1.5 hrs	Visualize ocean data in water column plots, section plots/transects, surface plots and scatter plots Visualize multiple datasets with overlays; Getting acquainted with quality flags of marine data products Calculate iso-surface variables and derived variables Learning the pro and cons of different map projections and colorscaling; Gridding (incl. DIVA) Vector plotting
CAU Kiel Julia Gottschalk	b. Marine Biogeochemistry: monitoring programs, observational platforms and associated data products	1.5 hrs	History and challenges of ocean biogeochemistry monitoring programs, including logistics, inter-calibration and quality control Value and purpose of various monitoring programs of marine biogeochemistry: from the Baltic Sea to the Southern Ocean, from a global to regional scale, from time-series to globally gridded datasets Key concepts of marine nutrient and element cycles (e.g. from GEOTRACES, etc.) and anthropogenic impacts on the marine carbon and carbonate systems (e.g., from GLODAPv2) revealed by these datasets

Practical 6
9th March 2023

University of Cadiz
Jesús Gómez-Enri

Oil Spill Detection from space with SENTINEL-1

3 hrs

Major oil spills from sinking super-tankers, or other marine accidents like the Deepwater Horizon (DWH) oil rig explosion and collapse, are thankfully very rare these days. However, smaller oil spills from shipping are unfortunately still common. Most ships have some type of fuel on board and if they are involved in an accident, there is a risk of that fuel leaking into the sea. More worryingly, some ships still deliberately release oil into the sea. In some areas even reaching the oil can be as hard as cleaning it up. Mud flats, swamps, marsh-lands and deltas can be particularly difficult.

Practical 7
13th March 2023

University of Split
Žarko Kovač

Primary production time series analysis and model parameter estimation

3 hrs

How is primary production measured?
How is primary production modelled?
How to optimize model performance and extract parameter values from data?
How to fill data gaps using models?

Practical 8
16th March 2023

University of Algarve
Flávio Martins

Introduction to ocean modelling using MOHID and Bentley's Open Flows FLOOD

3 hrs

This module will introduce the basics of implementing and running a numerical hydrodynamic model in a coastal zone. For that purpose the open source MOHID water modelling system will be used, connected to the Graphical User Interface provided by BENTLEY Systems®. Basic skills acquired in this module include:

Navigation in the Bentley’s Open Flows FLOOD environment
Overview of the main modules and data needed on a typical ocean hydrodynamic module
Setup of a simple coastal, tidal driven simulation
Run the simulation
Visualization and evaluation of model results

The skills will be useful to oceanographers, marine scientists, as well as engineers and data scientists.

Practical 9
20th March 2023

University of Gdansk
Maciej Markowski

Data Transformation/Integration with ETL tool - FME from SAFE.

3 hrs

This practical session will allow students to understand the following topics:

ETL concept
data transformation concept
how data can be pulled from external sources
how data can be manipulated to obtain restructured and reorganized data in defined 'table' format
how non-spatial data can be enriched by spatial data
how spatial data can be manipulated and easily visualized
easy way to organize huge amount of data

Session includes short theoretical intro, 2 demos, 1 practical use case.