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The OHF Legacy

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Werner Keil
Werner Keil

After an looking back at the history of Eclipse OHF and its parts, we're going to learn what happened to them and why. Beside those going a different path, mainly Open Health Tools (OHT) we take a closer look at the Legacy of OHF at Eclipse, mainly The Spatiotemporal Epidemiological Modeler (STEM) and Units of Measurement support from UOMo and related standards like the Unified Code for Units of Measure (UCUM)

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The OHF Legacy Eclipse UOMo, STEM and Open Health Tools Werner Keil Eclipse Day Kraków 13th September 2012
UOMo STEM Open Health Tools 2 © 2007-2012 Creative Arts & Technologies Images based on © Universal Pictures
Overview • Introduction • UOMo • Type-Safety • Why do we need it? • Unit-API, UOMo • Units and Healthcare • UCUM, HL7, used by Healthcare • STEM • What is STEM? • New Features • Demo • Open Health Tools • Q&A 3 © 2007-2012 Creative Arts & Technologies
Who am I? Werner Keil • Consultant – Coach • Creative Cosmopolitan • Open Source Evangelist • Software Architect • Java Godfather • UOMo Project Lead • … Twitter @wernerkeil 4 © 2007-2012 Creative Arts & Technologies
Type-Safety • Java does not have strongly typed primitive types (like e.g. Ada language). • For performance reasons most developer prefer primitive types over objects in their interface. • Primitives type arguments often lead to name clashes (methods with the same signature) 5 © 2007-2012 Creative Arts & Technologies
What do these disasters have in common? • Patriot Missile The cause was an inaccurate calculation of the time since boot due to a computer arithmetic error. • Ariane 5 Explosion The floating point number which a value was converted from had a value greater than what would be represented by a 16 bit signed integer. 6 © 2007-2012 Creative Arts & Technologies
What do these disasters have in common? • Gimli Glider (near disaster) Fuel loading was miscalculated through misunderstanding of the recently adopted Metric System, replacing the Imperial System • Mars Orbiter Preliminary findings indicate that one team used English units (e.g. inches, feet and pounds) while the other used metric units for a key spacecraft operation. • NASA lost a $125 million Mars orbiter because a Lockheed Martin engineering team used English units of measurement while the agency's team used the more conventional metric system for a key spacecraft operation • A credible source disclosed, there was a manual step with an outsourced person to convert these calculations between the different teams, and NASA budget cuts caused them to fire him and have the wrong, unpatched data transmitted!!! • This also underlines the added risk when 3 rd party contractors are involved or projects are developed Offshore 7 © 2007-2012 Creative Arts & Technologies
NASA “Star Wars” Initiative, 1983 23rd March 1983. Ronald Reagan announces SDI (or “Star Wars”): ground- based and space-based systems to protect the US from attack by strategic nuclear ballistic missiles. 8 © 2007-2012 Creative Arts & Technologies
1985 Mirror on underside of SDI Experiment: shuttle The Plan Big mountain in Hawaii 9 © 2007-2012 Creative Arts & Technologies
1985 SDI Experiment: What really happened 10 © 2007-2012 Creative Arts & Technologies
1985: What happened? 11 © 2007-2012 Creative Arts & Technologies
Unit Tests wouldn„t find these… Despite their name • All previous example illustrate three categories of errors difficult to find through Unit Testing: • Interface Errors (e.g. millisecond/second, radian/degree, meters/feet). • Arithmetic Errors (e.g. overflow). • Conversion Errors. 13 © 2007-2012 Creative Arts & Technologies
Causes of Conversion Errors • Ambiguity on the unit • Gallon Dry / Gallon Liquid • Gallon US / Gallon UK • Day Sidereal / Day Calendar • Degree Celsius / Degree Fahrenheit • Did you know that Gabriel Fahrenheit was born in Gdansk (Danzig) in northern Poland? • ... • Wrong conversion factors: static final double PIXEL_TO_INCH = 1 / 72; double pixels = inches * PIXEL_TO_INCH 14 © 2007-2012 Creative Arts & Technologies
Eclipse UOMo One Small Step…
Unit-API | Operations Results with Same Dimension Different Dimension Binary Operations Binary Operations add(double) or (long) root(int) multiply(double) or (long) power(int) divide(double) or (long) multiply(Unit) compound(Unit) divide(Unit) Unary Operations inverse()
Eclipse UOMo Bundles • UOMo currently consists of • UOMo Core • General parts of the framework, reusable components • UOMo Util • Utility classes, Formatting, Date/Time and other ICU4J or Unicode related items • UOMo XML • XMLPull and support for Markup Languages like UnitsML, MathML or SensorML 17 © 2007-2011 Creative Arts & Technologies
Eclipse UOMo Bundles (2) • UOMo Units • Based on Units of Measurement API • UOMo UCUM • Unified Code for Units of Measure support • UOMo Business • Business Types and Monetary System 18 © 2007-2012 Creative Arts & Technologies
UOMo UCUM Unified Code for Units of Measure The Unified Code for Units of Measure is inspired by and heavily based on • ISO 2955-1983 • ANSI X3.50-1986 • HL7's extensions called ISO+ 19 © 2007-2012 Creative Arts & Technologies
HL7 DSL def mySegment = ... // assignment to another NK1 segment instance def group = message.PATIENT_RESULT(0).PATIENT group.NK1(0) = 'abc' // syntax error! msg1.NK1(0) = mySegment // syntax error! msg1.NK1(0).from(mySegment) // works! def nk1 = message.PATIENT_RESULT(0).PATIENT.NK1(0) def otherNk1 = message.PATIENT_RESULT(0).PATIENT.NK1(0) nk1[4] = otherNk1[4] // copy address nk1[4][4] = otherNk1[4][4] // copy state or province only nk1[4][4].from(otherNk1[4][4])// equivalent nk1[4][4] = 'NY' // set state or province directly 20 © 2007-2012 Creative Arts & Technologies
UOMo Examples DEMO
STEM is Open Source http://www.eclipse.org/stem/downloads.php
STEM is a Framework Epidemiological Compartment Models Standard SEIR model Standard SIR model Births Births S E I R S I R Deaths Deaths S: susceptible E: exposed but not yet infectious I: infectious R: recovered
The Many Vectors of Infectious Disease Human Flu Swine Flu “Mixing Cell
US Counties (3109) Edges Common Border Edges Interstate Highway Edges Air Travel Edges
Goal: Evaluation of Public Health Policies Masks No Air travel HCN/HL7 Weather Vaccinate Air Traffic Masks/No Air Multiple parallel scenarios identically initialized from current real world conditions and simulate each simultaneously forward in time. ?
Simulations Based on ICDC Influenza Data as initial condition
Recent H1N1 Outbreak
STEM in Action DEMO
VISION OF OPEN HEALTH TOOLS Vision: To enable a ubiquitous ecosystem where members of the Health and IT professions can collaborate to build open, standards-based interoperable systems that enable patients and their care providers to have access to vital and reliable medical information at the time and place it is needed.
OHT | Stakeholder Communities Community of Health Professionals Community of National Community of Vendors Health Services Consumers Providers Patients Community of Regional, State and Local Physicians Community of Open Source Health Services Technology Developers Community of Standards Organizations
OHT | Approach to Standards Strategy: ■ Adopt recognized industry standards and best practices in services.  Maintain close working relationships with identified SDOs  Provide feedback to SDOs via early adopter program and communities to foster creation of useful, usable healthcare standards that address real healthcare requirements. Important SDOs: ■ HL7: CCD, Semantics, Documents, Services ■ OMG: technical specifications of services ■ IHE: pragmatic community for adoption ■ IHTSDO (SNOMED): Semantics, terminology definitions for healthcare ■ ASTM: CCR / CCD specifications ■ ISO/CEN/HL7: EHR requirements and specifications ■ ISO
OHT | Clinical Application Layers Business Use Case Clinical Use Case Clinical Content Model Application Design Clinical Templates Clinical Archetypes Reference Model, Types, Terminology
OHT | Based upon Eclipse Experience The Eclipse Eco-system Eclipse Open Source Community The community takes the Open Source Technology and build products for profit and use. The community includes 800,000 vendors and Eclipse Foundation organizations, 10 Leadership Projects, 150 Members, in 120 countries project. The economic value of the “free” code is $700,000,000 Eclipse Eco-system (USD). The commercial value of the revenue generated to members is in excess of 2 Billion (USD) The Eclipse Open Source The Eclipse Foundation Enable & Manage Eclipse The community builds the technology has over 4 million developers and 120 open source projects. These -Infrastructure Support projects can be conceptually organized into seven different "pillars" or -Intellectual Property categories: -Legal -Enterprise Development -Marketing -Embedded and Device Development -Rich Client Platform -Enable Eco-system -Rich Internet Applications -Enable Open Source -Application Frameworks -Application Lifecycle Management (ALM) -Service Oriented Architecture (SOA)
OHT | Communities Open Health Tools Open Source Community Open Health Tools Private Public Non-Eclipse Eco-system Commercial Open Applications Source Code & Data Eclipse Open Source Community Community Eclipse Eco-system The Open Health Tools Open Source The Open Health Tools Eco-system The community builds common services, frameworks, The community takes the Open Health Tools exemplary tools and example applications. Technology and builds, packages, and sells the For example: technology as products, applications, tools, for Record Locator Services & Hl7 Messaging profit and use. Terminology Services & Identity Management
Let„s talk Q&A
Links Eclipse – Project UOMo http://www.eclipse.org/uomo/ Units of Measurement API http://www.unitsofmeasurement.org UCUM http://www.unitsofmeasure.org
Links (2) Eclipse STEM http://www.eclipse.org/stem Open Health Tools http://www.openhealthtools.org/ OpenHealth Project http://www.openhealth.org
Contact werner@catmedia.us or uomo@catmedia.us Twitter: @wernerkeil Hashtag #EclipseUOMo

More Related Content

The OHF Legacy

  • 1. The OHF Legacy Eclipse UOMo, STEM and Open Health Tools Werner Keil Eclipse Day Kraków 13th September 2012
  • 2. UOMo STEM Open Health Tools 2 © 2007-2012 Creative Arts & Technologies Images based on © Universal Pictures
  • 3. Overview • Introduction • UOMo • Type-Safety • Why do we need it? • Unit-API, UOMo • Units and Healthcare • UCUM, HL7, used by Healthcare • STEM • What is STEM? • New Features • Demo • Open Health Tools • Q&A 3 © 2007-2012 Creative Arts & Technologies
  • 4. Who am I? Werner Keil • Consultant – Coach • Creative Cosmopolitan • Open Source Evangelist • Software Architect • Java Godfather • UOMo Project Lead • … Twitter @wernerkeil 4 © 2007-2012 Creative Arts & Technologies
  • 5. Type-Safety • Java does not have strongly typed primitive types (like e.g. Ada language). • For performance reasons most developer prefer primitive types over objects in their interface. • Primitives type arguments often lead to name clashes (methods with the same signature) 5 © 2007-2012 Creative Arts & Technologies
  • 6. What do these disasters have in common? • Patriot Missile The cause was an inaccurate calculation of the time since boot due to a computer arithmetic error. • Ariane 5 Explosion The floating point number which a value was converted from had a value greater than what would be represented by a 16 bit signed integer. 6 © 2007-2012 Creative Arts & Technologies
  • 7. What do these disasters have in common? • Gimli Glider (near disaster) Fuel loading was miscalculated through misunderstanding of the recently adopted Metric System, replacing the Imperial System • Mars Orbiter Preliminary findings indicate that one team used English units (e.g. inches, feet and pounds) while the other used metric units for a key spacecraft operation. • NASA lost a $125 million Mars orbiter because a Lockheed Martin engineering team used English units of measurement while the agency's team used the more conventional metric system for a key spacecraft operation • A credible source disclosed, there was a manual step with an outsourced person to convert these calculations between the different teams, and NASA budget cuts caused them to fire him and have the wrong, unpatched data transmitted!!! • This also underlines the added risk when 3 rd party contractors are involved or projects are developed Offshore 7 © 2007-2012 Creative Arts & Technologies
  • 8. NASA “Star Wars” Initiative, 1983 23rd March 1983. Ronald Reagan announces SDI (or “Star Wars”): ground- based and space-based systems to protect the US from attack by strategic nuclear ballistic missiles. 8 © 2007-2012 Creative Arts & Technologies
  • 9. 1985 Mirror on underside of SDI Experiment: shuttle The Plan Big mountain in Hawaii 9 © 2007-2012 Creative Arts & Technologies
  • 10. 1985 SDI Experiment: What really happened 10 © 2007-2012 Creative Arts & Technologies
  • 11. 1985: What happened? 11 © 2007-2012 Creative Arts & Technologies
  • 12. Unit Tests wouldn„t find these… Despite their name • All previous example illustrate three categories of errors difficult to find through Unit Testing: • Interface Errors (e.g. millisecond/second, radian/degree, meters/feet). • Arithmetic Errors (e.g. overflow). • Conversion Errors. 13 © 2007-2012 Creative Arts & Technologies
  • 13. Causes of Conversion Errors • Ambiguity on the unit • Gallon Dry / Gallon Liquid • Gallon US / Gallon UK • Day Sidereal / Day Calendar • Degree Celsius / Degree Fahrenheit • Did you know that Gabriel Fahrenheit was born in Gdansk (Danzig) in northern Poland? • ... • Wrong conversion factors: static final double PIXEL_TO_INCH = 1 / 72; double pixels = inches * PIXEL_TO_INCH 14 © 2007-2012 Creative Arts & Technologies
  • 14. Eclipse UOMo One Small Step…
  • 15. Unit-API | Operations Results with Same Dimension Different Dimension Binary Operations Binary Operations add(double) or (long) root(int) multiply(double) or (long) power(int) divide(double) or (long) multiply(Unit) compound(Unit) divide(Unit) Unary Operations inverse()
  • 16. Eclipse UOMo Bundles • UOMo currently consists of • UOMo Core • General parts of the framework, reusable components • UOMo Util • Utility classes, Formatting, Date/Time and other ICU4J or Unicode related items • UOMo XML • XMLPull and support for Markup Languages like UnitsML, MathML or SensorML 17 © 2007-2011 Creative Arts & Technologies
  • 17. Eclipse UOMo Bundles (2) • UOMo Units • Based on Units of Measurement API • UOMo UCUM • Unified Code for Units of Measure support • UOMo Business • Business Types and Monetary System 18 © 2007-2012 Creative Arts & Technologies
  • 18. UOMo UCUM Unified Code for Units of Measure The Unified Code for Units of Measure is inspired by and heavily based on • ISO 2955-1983 • ANSI X3.50-1986 • HL7's extensions called ISO+ 19 © 2007-2012 Creative Arts & Technologies
  • 19. HL7 DSL def mySegment = ... // assignment to another NK1 segment instance def group = message.PATIENT_RESULT(0).PATIENT group.NK1(0) = 'abc' // syntax error! msg1.NK1(0) = mySegment // syntax error! msg1.NK1(0).from(mySegment) // works! def nk1 = message.PATIENT_RESULT(0).PATIENT.NK1(0) def otherNk1 = message.PATIENT_RESULT(0).PATIENT.NK1(0) nk1[4] = otherNk1[4] // copy address nk1[4][4] = otherNk1[4][4] // copy state or province only nk1[4][4].from(otherNk1[4][4])// equivalent nk1[4][4] = 'NY' // set state or province directly 20 © 2007-2012 Creative Arts & Technologies
  • 21. STEM is Open Source http://www.eclipse.org/stem/downloads.php
  • 22. STEM is a Framework Epidemiological Compartment Models Standard SEIR model Standard SIR model Births Births S E I R S I R Deaths Deaths S: susceptible E: exposed but not yet infectious I: infectious R: recovered
  • 23. The Many Vectors of Infectious Disease Human Flu Swine Flu “Mixing Cell
  • 24. US Counties (3109) Edges Common Border Edges Interstate Highway Edges Air Travel Edges
  • 25. Goal: Evaluation of Public Health Policies Masks No Air travel HCN/HL7 Weather Vaccinate Air Traffic Masks/No Air Multiple parallel scenarios identically initialized from current real world conditions and simulate each simultaneously forward in time. ?
  • 26. Simulations Based on ICDC Influenza Data as initial condition
  • 29. VISION OF OPEN HEALTH TOOLS Vision: To enable a ubiquitous ecosystem where members of the Health and IT professions can collaborate to build open, standards-based interoperable systems that enable patients and their care providers to have access to vital and reliable medical information at the time and place it is needed.
  • 30. OHT | Stakeholder Communities Community of Health Professionals Community of National Community of Vendors Health Services Consumers Providers Patients Community of Regional, State and Local Physicians Community of Open Source Health Services Technology Developers Community of Standards Organizations
  • 31. OHT | Approach to Standards Strategy: ■ Adopt recognized industry standards and best practices in services.  Maintain close working relationships with identified SDOs  Provide feedback to SDOs via early adopter program and communities to foster creation of useful, usable healthcare standards that address real healthcare requirements. Important SDOs: ■ HL7: CCD, Semantics, Documents, Services ■ OMG: technical specifications of services ■ IHE: pragmatic community for adoption ■ IHTSDO (SNOMED): Semantics, terminology definitions for healthcare ■ ASTM: CCR / CCD specifications ■ ISO/CEN/HL7: EHR requirements and specifications ■ ISO
  • 32. OHT | Clinical Application Layers Business Use Case Clinical Use Case Clinical Content Model Application Design Clinical Templates Clinical Archetypes Reference Model, Types, Terminology
  • 33. OHT | Based upon Eclipse Experience The Eclipse Eco-system Eclipse Open Source Community The community takes the Open Source Technology and build products for profit and use. The community includes 800,000 vendors and Eclipse Foundation organizations, 10 Leadership Projects, 150 Members, in 120 countries project. The economic value of the “free” code is $700,000,000 Eclipse Eco-system (USD). The commercial value of the revenue generated to members is in excess of 2 Billion (USD) The Eclipse Open Source The Eclipse Foundation Enable & Manage Eclipse The community builds the technology has over 4 million developers and 120 open source projects. These -Infrastructure Support projects can be conceptually organized into seven different "pillars" or -Intellectual Property categories: -Legal -Enterprise Development -Marketing -Embedded and Device Development -Rich Client Platform -Enable Eco-system -Rich Internet Applications -Enable Open Source -Application Frameworks -Application Lifecycle Management (ALM) -Service Oriented Architecture (SOA)
  • 34. OHT | Communities Open Health Tools Open Source Community Open Health Tools Private Public Non-Eclipse Eco-system Commercial Open Applications Source Code & Data Eclipse Open Source Community Community Eclipse Eco-system The Open Health Tools Open Source The Open Health Tools Eco-system The community builds common services, frameworks, The community takes the Open Health Tools exemplary tools and example applications. Technology and builds, packages, and sells the For example: technology as products, applications, tools, for Record Locator Services & Hl7 Messaging profit and use. Terminology Services & Identity Management
  • 36. Links Eclipse – Project UOMo http://www.eclipse.org/uomo/ Units of Measurement API http://www.unitsofmeasurement.org UCUM http://www.unitsofmeasure.org
  • 37. Links (2) Eclipse STEM http://www.eclipse.org/stem Open Health Tools http://www.openhealthtools.org/ OpenHealth Project http://www.openhealth.org
  • 38. Contact werner@catmedia.us or uomo@catmedia.us Twitter: @wernerkeil Hashtag #EclipseUOMo