OBIS-USA

obtainablerabbiData Management

Jan 31, 2013 (4 years and 9 months ago)

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OBIS
-
USA:

STATUS & WAY FORWARD

OBIS
-
USA DEVELOPMENT TEAM:



Mark Fornwall,
Node Manager, Pacific Basin Information
Node, National Biological Information Infrastructure



Rob Guralnick


Assoc. Prof. and Curator


University of Colorado Boulder



Philip Goldstein


Senior Professional Researcher


University of Colorado Boulder

“…we are locked into a race. We must hurry
to acquire the knowledge on which a wise
policy of conservation and development can
be based for centuries to come.”




-

E. O. Wilson


“Proper stewarding of the Ocean is critical to
the long
-
term vitality of the United States.”




-

NSTC JSOST


WHY TRY TO COMPILE

BIOGEOGRAPHIC DATA

ON OCEAN SPECIES?

Towards Unification and Wisdom

U.S. Vitality


Capability to forecast key
ocean and ocean
-
influenced processes
and phenomena



Scientific support for
ecosystem
-
based
management



Deploying an Ocean
Observing System

OBIS
-
USA

DOI COMMITMENTS


Progress on Federal Budget


Funding Committed
-

$365k


New contract to create operational site


ADVISORY TEAM


Working Group Established


Biogeographic

Data Standard to IOOS


Draft Business Plan

ACCOMPLISHMENTS

PRIORITY DATASETS


10 targeted datasets, 3 priority


Work in progress ingesting
priorty

datasets

WHAT IS THE PURPOSE OF OBIS
-
USA?




To develop a regional “portal” for


United States ocean biodiversity




Data available from portal of high quality


& well documented



Metadata conforms to nat/internat. standards



Stronger connections to national agency


data providers



Data links to tools for visualizing/analyzing


biodiversity



What are the different roles for iOBIS
and OBIS
-
USA?

iOBIS



Develop international


data sharing standards




Coordinate and harvest


data from regional nodes





Provide global view on


ocean biodiversity

OBIS
-
USA



Work with USA providers to


share ocean biogeographic data





Maintain & provide known


quality U.S.A data & metadata





Building region
-
specific tools


for visualization and analysis


related to national agendas


Biodiversity Data Access

OBIS

Data

Index


Taxonomic
Name
Service
(ITIS)

User

requests


Portal Architecture

Local

DB call

Online mapping for

visualization, validation



Analysis services

Examples:

Species richness analysis

Ecological
niche

models

Survey gap tools, etc.

Valid

data to

text. tools

OBIS
-
USA IS MORE THAN DATA AGGREGATION


-

Mapping and Analysis Services



Analysis services

Examples:

Species richness
analysis

Ecological niche models

Survey gap tools, etc.

Service registry

Genetic Data

GENBANK, EMBL,

METAGENOMICS
Databases (eg. CAMERA)


Phenotype Data

MorphBank,

TraitNet, Host DB,

Functional genes

Environ. Data

Global Earth

Observation

System, IPCC, USGS,
WorldClim

Biodiversity
Portal

OBIS
-
USA (and all biodiversity portals) Will Grow and Link


Integrating More Data Types and Analysis Services

OBIS
-
USA Techology Plan



Interoperability of existing
biogeographic data


Requirements and Users


Outline of Functions


Development Plan



All important… but perhaps

a demonstration first


Available to User …

OBIS
-
USA Techology Plan

Data Access Methods

Table

Map

Web Services

Download

Database

Query

External
links, web
services

DiGIR Resources

Screen

File

Application

OBIS
-
USA Techology Plan

Scope


Functions


ingest, interoperability, QA, query,
mapping, download and web
services


Data


biological
(
85
%),
environmental
(
15
%)


Analysis


Interface to pilot analytical tool(s)


OBIS
-
USA Techology Plan

Outline of Dataset Functions

Provider e.g., ArcOD

Query

Channels …

Functional Metadata

Ingest Metadata

Data Dashboard

Follow
-
up items

OBIS
-
USA Techology Plan

Ingest Process for Interoperability
-

DarwinCore2

Provider Data e.g., ArcOD

ArcODImage

ArcODDwC2

File: Image

File: DarwinCore2

Translation

Layout Identical to Provider Data.

Stored within OBIS
-
USA as data source

and reference point.

Layout in OBIS
-
USA common format for all
database and DiGIR services

Translate to DarwinCore2 (OBIS extension)

This is the basis of interoperability.

ALL translation logic is in a single, consistent location.

Translation metadata available on internal web site.

Fallout status also tracked on internal web site.

Received
by
OBIS
-
USA

postgreSQL Database
-


on
-
line queries, mapping,
DiGIR and web services.

Fall
-
out

Issues that
limit inter
-
operability.

Process



OBIS
-
USA Techology Plan 2008
-
2009 Part 1

Internal Web Site 1.0

Web design for queries
-

tabluar, mapping, download, for biol and environmental data

Transition
2007
Datasets

1st new data (biol)

Query by map interface

Web services, Google gadgets, r interface, niche modeling

Identify potential schema issues

Web Services (SOA) for OBIS
-
USA Functions

Provider Data

2009

Functions

2008

Internal Web Site 2.0

New Public Site Available

Continue biol data; 1st
env data

Implement performance technology for 10
7
-
record database

Map interface wms/wfs
compatible

Ingest automation

Aggregated queries / basic mapping

Combine biol and env queries

Web Access

Web Developer on board /
public web interface

USNC Feedback


Verify ingest of 2007 data
with J. Kineman

Develop new providers and datasets (what) and contacts (whom)

Implement “in
-
hand” requirements from 2007

Define criteria for new req. in Business Plan

Develop institutions and individuals that are sources of new req.

Stakeholder relations (sponsors, advisory, reviewers, users) and
sources for new requirements

Req. for production installation (performance,
security, etc)

Collaborate with Lakewood
-

define target HW
and SW environment

Define config for operation and
performance at Lakewood

Communications and Relationships

Requirements

Quarterly tech review with NBII Lakewood

Transition activities

Define, evaluate and implement new req.

Drivers of new requirements into development cycle

2009

2008

Transition to Next Stage

OBIS
-
USA Technology Development Plan 08
-
09 P2

OBIS
-
USA:

Good for Science AND Management

Multiple studies document use of
biogeographic data for:

1
. Wise management of current
biodiversity resources and;

2
. Predictions about future state.


Thus “ensuring longer term returns on
the money society invested in initial
data gathering” (Zeller et al.
2005
)


Mapping

Predictive modeling

Database querying