user guide e3 gpt - e3 geoportal

European Environment and Epidemiology Network ECDC - E3 GEOPORTAL

User guide

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E3 Network Geoportal User Guide

TABLE OF CONTENTS

TABLE OF CONTENTS .................................................................................... 2

INTRODUCTION .............................................................................................. 3

DISCLAIMER ................................................................................................... 4

QUICK START ................................................................................................. 5

HOME PAGE ................................................................................................... 7

SEARCH DATA: main page .............................................................................. 8

SEARCH DATA: Results ................................................................................. 10

BROWSING DATA: Metadata details ............................................................... 11

PREVIEWING DATA: Geospatial ressources ................................................... 12

PREVIEW: Geospatial services ...................................................................... 13

UPLOAD DATA: Metadata / Metadata & Data .................................................. 14

UPLOAD METADATA COMPILER ................................................................. 15

NEWS............................................................................................................ 16

EUROPEAN ENVIRONMENT AND EPIDEMIOLOGY NETWORK ..................... 17

PUBLICATIONS OF INTEREST ...................................................................... 18

LINKS ............................................................................................................ 19

E3 tools : Quantitative microbial risk assessment tool tool ................................. 20

E3 tools : Vibrio risk map ................................................................................. 21

E3 NETWORK REGISTRATION FORM ........................................................... 23

CONTACT ..................................................................................................... 24

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INTRODUCTION

The ECDC E3 Geoportal, the central component of the European Environment and Epidemiology (E3) Network, has been designed by ECDC to collect and make available a wide range of information for anybody interested in infectious disease epidemiology in Europe.

The objective of the E3 Geoportal is to promote geospatial infectious disease modelling in Europe and include advanced risk assement into public health decision-making processes.

There are many different determinants of infectious disease transmission, one of which is climate change, but they are often highly dispersed and/or difficult to obtain. The E3 Geoportal will facilitate the discovery, the collection and exchange of these datasets in a user-friendly manner. It is an inventory of all the information resources that are collected, maintained, and managed by a collaborative effort under the European Environment and Epidemiology Network.

The European Environment and Epidemiology (E3) Network is also producing other useful resources such as analytical tools, published risk maps, reports, and software applications. The geospatial datasets contained in the E3 Geoportal cover potential determinants of various communicable diseases in Europe in the broadest sense. They include past, current and future climatic parameters such as climate change scenarios; landscape and land-use features; and socio-economic data.

If you are a producer of geospatial data relevant to infectious disease epidemiology, we invite you to become a partner of the E3 Network. In this way, you will be able to upload your own geospatial datasets and/or maps for sharing with other users (you can designate the privacy settings and data policies distribution for such data). The E3 Geoportal has been designed to be consistent with the INSPIRE guidelines (Infrastructure for Spatial Information in the European Community) so as to ensure reliability and comparability of data.

After a Quick start section outlining the overall functionalities of the E3 Geoportal, the user guide provides the user with the main functionalities of the E3 platform page by page.

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DISCLAIMER

All information and materials presented on the E3 geoportal have been prepared solely for the purpose of sharing and exchanging knowledge and expertise through collaborative working under the European Environment and Epidemiology (E3 Network) Project.

While this Geoportal makes every effort to provide useful data and information materials in the E3 area of focus, it offers no warranty, expressed or implied, as to the accuracy, reliability or completeness of the information it contains.

A number of materials on this Geoportal may contain live references (or pointers) to information created and maintained by other organisations. Please note that this Geoportal does not control and cannot guarantee the relevance, timeliness, or accuracy of these external materials. These external materials may also be protected by copyright law. They may not be reproduced or redistributed without the prior written permission of their respective source organisations.

Unless otherwise specified, your access to the information on this Geoportal does not imply a license to reproduce and/or distribute this information and you are not allowed to any such act without the prior approval of Prof. Jan Semenza at ECDC.

All enquiries about permission should be directed to the Geoportal’s Administrator. Under no circumstances will ECDC be liable to any person or business entity for any direct, indirect or other damages based on any use of this Geoportal.

Unauthorised attempts to upload information or change information on this web site are strictly prohibited and may be punishable under EU penal codes. Information regarding such acts may also be used for authorised law enforcement investigations.

For site security purposes and to ensure that this service remains available to all users, this system may employ software programs to monitor network traffic, or to identify unauthorised attempts to upload or change information, or otherwise cause damage.

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QUICK START SYSTEM REQUIREMENTS

This page describes the main features of the E3 Geoportal. For further detailed information, please refer to the user guide available above (link to PDF user guide right up corner). System requirement: the platform is optimized for Internet Explorer 10 with Google earth plugin available at: http://www.google.com/earth/explore/products/plugin.html.

ECDC does not guarantee any support for the use of other web-browsers even if those were successfully used during user test phase.

SEARCH AND DISCOVERY

Keyword Search. Use the free text box to type in a keyword of the subject or topic of search. If this text is found in the metadata abstract, the search query will return the results in a list at the bottom of the page.

Extended Search. The following filters can be user to perform an extended search by:

- content type in selecting the different types of resources available in the Geoportal (map files, map services,documents, tools, etc.);

- date that applies to the date of creation of the resource;

- data classification corresponding to GEneral Multilingual Environmental Thesaurus GEMET- INSPIRE themes (the INSPIRE Spatial data themes), E3 Keywords (keywords formulated by the E3 Network Project) or Data Category (ISO standards for data classification);

- geographic location using name or geographic extent. You can specify a place name in the free text box, or draw a bounding box to define an area of interest within the coverage map.

The sort option will display the returned list in order of preference.

Browse Tree Catalogue. The browse tree follows a data classification structures that allows the user to drill down and find the resources in a particular subject or topic area. It uses data classification standards from INSPIRE GEMET (Thesaurus GEMET at https://wiki.ceh.ac.uk/pages/viewpage.action?pageId=119115872 ), ISO Topic Categories (more information at http://gcmd.nasa.gov/add/difguide/iso_topics.html and http://www.isotc211.org/ ), and the E3 Keywords in a file tree structure.

RESULTS DISPLAY AND FUNCTIONS

The results of a search appear as a list of records. Each record displays the following main sections: the resource title, the resource short abstract and the functions for interacting with the resource.

Note that the display and behaviour of functions on a record depend on both its resource type and user permission settings.

http://www.google.com/earth/explore/products/plugin.html

https://wiki.ceh.ac.uk/pages/viewpage.action?pageId=119115872

http://gcmd.nasa.gov/add/difguide/iso_topics.html

http://www.isotc211.org/

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DATA/METADA UPLOAD AND PUBLISHING

The Geoportal provides tools for creating metadata, uploading metadata alone and uploading metadata and data into its catalogue. These include:

Metadata Compiler. The metadata complier allows the user to create a metadata file that is compliant with the E3 metadata standards. See corresponding webpage and Metadata compiler help file for more information.

Upload Metadata and/or Data. A registered user can upload metadata only, as one file at a time or as a batch. Metadata can also be uploaded together with the associated data (zipped format) but only as a single file at a time.

The system will automatically validate each metadata file upload against E3 standards. Only compliant metadata file will be accepted and uploaded successfully. The E3 service administrator and the project management will control and approve all data/metadata prior to dissemination.

USER REGISTRATION

The user should first create an ECDC public account (user name and login) to access ECDC public application (see link: Create an ECDC account in E3 geoportal Home page).

Once the user is sign-in with ECDC public account credential (sign-in link in the right up corner); the link to request access to E3 repository is activated (Home page link: "Request access to E3 data repository as an E3 User"). The user is able to submit to the E3 service administrator the E3 registration form. The registration will be notified to the user by email within one working week to access data and functionalities as first level of permission (create and upload metadata, preview of data and Image Services). The system will automatically validate each metadata file uploaded against E3 standards for approval of the E3 service administrator.

The E3 user can contribute to the repository in sending a proposal using the link "Contact as to become an ECDC E3 partner" and, in addition, access restricted data download and submit geospatial data and metadata into the ECDC E3 Geoportal thematic group.

CONTACTING US

To contact us, please use the details provided on the contact page.

The section below describes in page-by-page manner the main functionalities of the E3 geoportal.

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HOME PAGE

Search function

Register an ECDC public account

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SEARCH DATA: main page

Type the search term

and click search button

Search according to a geographic location or map area

Search by keywords according to thematic areas

Search by start/end dates of the datasets or publications

The list of search results will appear at the bottom of the web page.

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BROWSE DATA

Browse according to data categories

Detailed results for a specific category

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SEARCH DATA: Results

1

1 REST interface ( see: https://en.wikipedia.org/wiki/Representational_state_transfer)

Detailed search results:

Title and abstract

Links to the different features of the selected resource:

The link are depending of both user permission and type of resource.

Metadata details; Metadata download; Data download in function of user access rights; Preview resource with Google Earth plug in; Preview of web map services and get service details; Download KMZ files for spatial data.

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BROWSING DATA: Metadata details Example of Metadata details from search results:

Title, source, keywords, date of publication, etc.

Geographic extent of specific datasets

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PREVIEWING DATA: Geospatial ressources

Google Earth interface enables exploration of geographical features of searched resources

Links to the different capabilities of selected resources:

Download a KMZ with the spatial features; Download the data zipped for the metadata.

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PREVIEW: Geospatial services

Map preview of a resource available as web map service:

Details of the service is available in the right panel.

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UPLOAD DATA: Metadata / Metadata & Data

Upload metadata page functionalities:

• Metadata compiler: Compilation of metadata; • Uploading of metadata, or metadata & data (E3 members); • XML publication under approval of E3 administrator (E3

partners).

Step 1: “add” button allows uploading several metadata/data;

Step 2: check if the XML is available in the frame;

Step 3: Click “Upload” to submit your metadata or metadata & data to E3 Geoportal.

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UPLOAD METADATA COMPILER

Compilation of metadata following the E3 and INSPIRE standards:

Click the right bottom arrow to start the metadata compiler

Metadata compiler first page (see Metadata compiler help guide).

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NEWS

News and Upcoming events details:

Short abstract, date and web-link.

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EUROPEAN ENVIRONMENT AND EPIDEMIOLOGY NETWORK

E3 network

Information about the concept values and project. Note the table of E3 Partners in the bottom of the page.

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PUBLICATIONS OF INTEREST

Peer reviewed publications relevant to the E3 Network:

The publication selection on this page is based upon weekly queries of scientific literature (database: Embase, Pubmed and Scopus).

The article(s) relevant for the scope of the project are proposed to the reader.

Web links to abstracts and articles (if available) are displayed under the details within the left column.

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LINKS

Links of interest:

The items are organized according to link type describing the scope of the link (can be expanded), and then a short description and the hyperlink.

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E3 tools : Quantitative microbial risk assessment tool tool

Quantitative microbial risk assessment tool (QMRA) is available after download of a web browser plugin

A technical report is provided through the .pdf link. This describes in details how to use the tool its methodological background.

Note that the tool is running with a free CDF player plugin that need to be installed.

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E3 tools : Interative risk map (Vibrio spp., Aedes aegypti and albopictus, …)

The Vibrio risk map is available assessing the risk of Vibrio infections through bathing water.

The links provides the methodological background of the risk map and partners involved in this initiative.

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HELP

The page summarises main functionalities of the portal:

• Search & discovery; • Results display and functions; • Data and metadata upload and publishing; • User registration process; • Contact

An extended help file is available for download (link).

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E3 NETWORK REGISTRATION FORM

E3 network registration form:

Once the user is signed in using their ECDC public account credentials, the user is able to submit to the E3 service administrator the E3 registration form.

The registration will be notified to the user by email within one working week to access data and functionalities as first level of permission (create and upload metadata, preview of data and Image Services).

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CONTACT

Contact form to the ECDC E3 Project to post comments, suggestions, corrections or requests to the E3 Service Administrator.

user guide e3 gpt - e3 geoportal

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