Geosciences Network (GEON): Enabling Discoveries in the Earth Sciences

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Geosciences Network (GEON) Enabling Discoveries
in the Earth Sciences

• Dogan Seber
• San Diego Supercomputer Center
• University of California, San Diego

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Outline

• Cyberinfrastructure and the Geosciences
• GEON Cyberinfrastructure
• GEON Resources and Access Mechanisms
• Impact on Science and Education
• Synthetic seismogram calculation
• LiDAR data processing
• 3D and 4D visualizations
• Discover Our Earth
• Future activities
• Open Earth Framework

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Enabling Scientific DiscoveriesPathway to
Discovery
Data
Knowledge
Access/Collect
Process
Analyze
Interpret
Discovery
How can cyberinfrastructure help?
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What Geoscientists worry about
beyond science questions

• Exponential Increase in Data Volume
• Data Storage, Access and Preservation
• Data Integration (semantic and syntactic)
• Computational Challenges
• Advance Visualization (3D/4D)
• Archiving and publications of results with
  reusable components (reusability)
• Improving education and developing a strong
  workforce the next generation of scientists

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Cyberinfrastructure can help!
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Integrated Cyberinfrastructure System Source
Dr. Deborah Crawford, Chair, NSF CI Working
Committee

• Applications
• Geosciences
• Environmental Sciences
• Neurosciences
• High Energy Physics

DevelopmentTools Libraries
Education and Training
Discovery Innovation
Middleware Services
Hardware
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GEONs Vision

• Enable new discoveries in the geosciences by
  developing an easy-to-use integration environment
  (i.e., GEON Cyberinfrastructure) built using
  state-of-the-art information technology
  resources.

GEONs Challenge
It is an effort involving multi-disciplinary
teams. A variety of Earth scientists
representing various disciplines such as
seismology, structural geology, paleontology,
geochemistry, geology and general geophysics are
working with computer scientists to realize the
vision.
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GEON Cyberinfrastructure Principles

• An equal partnership
• Geoscientists working with IT experts and
  Computer Scientists
• The two-tier approach
• Use best practices, including use of commercial
  tools and open standards, where applicable
• while developing advanced technology, and doing
  CS research
• Create shared science infrastructure
• Integrated online databases, with advanced search
  and query engines
• Online models, robust tools and applications
• Leverage from and work with other intersecting
  projects
• Much commonality in the technologies, regardless
  of science disciplines

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GEON Infrastructure
GEON Portal
Web/Grid Services Interfaces
Access
Registration
GEONsearch
GEONworkbench workflow, visualization, HPC
MyGEON
Mapping Services
Data Registration Services
Data Integration Services
Computational Modeling Services
ArcIMS WMS WFS
Ontology Enabled Integration
Modeling, Analysis Tools
Software
Logging Services
Indexing Services
Other Core Services
Data Services
Usage Stats Collection Analysis
Spatial Temporal Conceptual
GridFTP OGSA-DAI CSF
SRB
OpenDAP
DB2, Postgres
mySQL
Hardware
Physical Grid RedHat Linux, ROCKS,
OGSI, Internet, I2
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Primary GEON Services

• Resource (data, tools, files) Registration gt
  GEONcontribute
• Resource Discovery gt GEONsearch
• Personalized Access gt myGEON
• Data Integration gt GEON Integration Cart
• Application Developments gt GEONtools

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Other distributed apps Kepler, DLESE,
User Access (via Portal)
Client Access (via Web Services)
myOntology.owl
myDataset.foo
Search condition(s) spatial temporal
concept
User actions add delete manipulate
metadata
metadata
GEONsearch
GEONworkbench
ResourceRegistration
GEON Workspace (user)
GEON Catalog
SRB
Log
GEONmiddleware
external services
Gazetteer, DLESE,
Geologic Age, Chronos,
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Access -- GEON Web Site and the Portal
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GEON Resource Registration System

• Hosted registration Contributor provides a full
  copy of the resource to the GEON network, and the
  network maintains the resource and archives it
• Non-hosted registration Users provide access to
  a resource, but GEON does not keep a copy, and
  accesses the resource remotely. (e.g., RDBMS).
  Full functionalities are available in the
  integration area.
• Public, private, and group registrations
• Register ontologies (domain knowledge) and
  ontology articulations
• Optionally register datasets to ontologies

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Resource Discovery in GEON

• A Search Engine for Users
• Metadata based search
• Spatial coverage based search
• Temporal coverage based search
• Concept based search

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MyGEON -- myWorkbench

• A personalized area to save resources of
  personal interest, integrate a variety of
  resources together, visualize data sets,
  archive/monitor computational results and share
  personal products with other selected individuals
  and groups.

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Data integration in myWorkbech
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myProjects
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Building CI Tools

• Synthetic Seismogram Calculation Tool
• CPU intensive grid application
• LiDAR data Analysis Tool
• Very large databases, and on-demand processing
• Paleo Integration Project
• Adding the component of time
• IDV (Interactive Data Visualization)
• Volume visualization

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A portal-based grid application in GEON - SYNSEIS

• SYNSEIS is a SYNthetic SEISmogram calculation
  tool built as part of the GEON system
• Uses E3D in the background
• Enables 2D and 3D seismic waveform simulations
  using a service-oriented architecture
• Utilizes both local as well as national
  computational platforms such as TeraGrid
• Integrated with GEON resources allowing
  utilization of archival and storage resources

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SYNSEIS Components --
e3d
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SYNSEIS Architecture
GEONGrid Portal
MyGEON
GEONTools
Synseis Portlet
SYNSEIS Computations
Macromedia Flash GUI
Map Server
HTTP
Web Services
Earth Model Service
Job Submission/Monitoring and File Service
Data Archives Service
JDBC
IIOP/CORBA
Grid Services
Grid FTP
IRIS DMC
HPC Resources
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SYNSEIS Portlet
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GEON SYNSEIS INTEGRATION PLATFORM
Observation
EarthScope data
Simulation
Analyses and Integration
Earthquake parameters Seismic attenuation Etc.
GEON portal and HPC Environment
Scientific Discoveries
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Capabilities Built into SYNSEIS
Interactive User Interface
Real-time access to IRIS DMC database Event, station, waveform access based on a dynamic map interface. Event selection based on date and location
Ability to define (both graphically or lat-long based) events and station locations
Base map choices of topography, geology, tectonic boundaries, and urban area boundaries
Ability to use sediment thickness and Moho depth data sets seamlessly
Ability to use variable thickness flat-layer models
Ability to build 2D models using an interactive model builder
Run jobs remotely at TG and/or local resources
Ability to obtain waveform propagation movies on the fly
Job monitoring
Job archival mechanisms and resubmissions with revised parameters
Source parameter sweep for multiple simulations
Download capabilities for observed as well as simulated records

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LiDAR Data Analysis
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Survey
Example LiDAR Workflow Courtesy Chris Crosby,
ASU
Interpolate / Grid
D. Harding, NASA
Point Cloud x, y, z,
Analyze / Do Science
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Example Outputs
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PaleoIntegration
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3D/4D Visualization - GEON IDV
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Visualization - Integration
Yellowstone (Smith and others) and the
geodynamics of the mantle (McNamara)
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4D Visualization Images from the GEON IDV
170 ma 90 ma
10 ma
Geodynamics- McNamara Paleomagnetics- Schettino
, Scotese Paleogeography- Blakely
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GEON Network USA Nodes
PoP node
4 Tb
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GEON Software Stack

• Base OS
• Rocks highly programmatic software configuration
  management
• Development
• Globus 4.0.2
• Web Services (Jakarta-tomcat-5.0.28, axis-1.1,
  ant-1.6, jdk1.4.2)
• GridSphere 2.0.2 Portal Framework
• Database
• Postgres 8.0.3
• PostGIS 1.0.2 (Geos, Proj)
• GIS/Mapping
• Grass 6.0.2, GMT
• Security
• Tripwire, chkrootkit
• System Monitoring
• INCA Testing and Monitoring framework (Teragrid)
• With GRASP benchmarks
• Network Weather Service (NWS)
• Ganglia
• Job Submission and Monitoring

GEONGrid Software Stack Version 1.0
GridSphere Portal
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Node Deployment Architecture

• Hardware Deployment
• Each site runs a PoP
• Optional cluster and data resources
• Users access resources through PoP
• PoP provides point of entry
• PoP provides access to global services in GEON
• Developers add services data hosted on GEON
  resources
• Web services/Grid services

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i-GEON International GEON

• GEON nodes operational in Japan, China, and
  India.
• i-GEON workshops
• India, October 2005
• China, July 2006
• Russia, June 25-26, 2007
• India, August 2007 (follow-up workshop)
• Australia??, (Dates to be determined)

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GEON Cyberinfrastructure Summer Institute Series
The Cyberinfrastructure Summer Institute for
Geoscientists series is designed to introduce
geoscientists to commonly-used as well as
emergent information technology (IT) tools.
Topics covered include Data Modeling, Web
Services, Geographic Information Systems,
introduction to key concepts in Grid Computing,
Parallel Programming, and Scientific Workflows.
CSIG 2006, August 2006, San Diego, CA. CSIG
2005, July 2005, San Diego, CA. CSIG 2004,
August 2004, San Diego, CA. Webcasts of Summer
Institutes are available athttp//www.geongrid.or
g/CSIG04/ http//www.geongrid.org/CSIG05/ http//w
ww.geongrid.org/CSIG06/ 2007 Summer Institute is
planned August 13-17, 2007
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Cyberinfrastructure and Earth Science Education
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Using Cyberinfrastructure to Improve the Quality
of Education

• Discover Our Earth (DOE)
• Designed as a web-accessible resource for
  learning
• Includes a build-in evaluation component

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• DOE provides a couple of internet mapping
  applications and other software tools as well as
  supportive information that enable
  discovery-based learning.
• Students access the same data sets as scientists
• Using the web allows us to reach a large audience
  in a cost effective manner.

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System Design Development

• Access is provided through three gateways
• Teachers guide
• Student pages
• Web tools.
• This allows users to access the website from
  multiple perspectives.
• Technology used GIS, Java, Flash, HTML and VRML.

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http//www.DiscoverOurEarth.org/
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Teachers Guide

• Provide supportive material for teachers(Lesson
  Plans)
• Links to students pages, activities and web tools

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Student Pages

• Provide supportive material for students.
• Include interactive, discovery-based activities
  for students.

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Web Tools

• Interactive Mapping Tools
• Virtual Experiments
• 3D Graphics

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Interactive Mapping Tools

• The Quick Use Earth Study Tool (QUEST) is an
  interactive web mapping tool designed for
  students.

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Virtual Experiments

• Interactive experiments allow students to test
  their own ideas.Experiments- Continental
  Drift- Isostasy- Viscosity.

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Evaluation

• Undergraduates in introductory level geology
  classes used the QUEST tool in lab exercises.
• The current evaluation focus is middle and high
  school teachers and students.
• Usability evaluation for all learners.

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www.geongrid.org