Difference between revisions of "OpenELIS"

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| name                  = OpenELIS
 
| name                  = OpenELIS
 
| title                  = OpenELIS
 
| title                  = OpenELIS
| logo                  = [[File:OpenELIS_logo.jpg|200px]]
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| logo                  = [[File:OpenELIS_logo.jpg|230px]]
 
| screenshot            = <!-- [[File: ]] -->
 
| screenshot            = <!-- [[File: ]] -->
 
| caption                =  
 
| caption                =  
 
| collapsible            =  
 
| collapsible            =  
 
| author                =  
 
| author                =  
| developer              = [https://sites.google.com/site/openelisglobal/about University of Washington]
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| developer              = [http://openelis.org/ University of Iowa], [https://sites.google.com/site/openelisglobal/about University of Washington]
| released              = {{Start date|YYYY|MM|DD}}<ref name="ELIS1.0">{{cite web |url= |title= |publisher= |date= |accessdate=26 April 2012}}</ref>
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| released              = {{Start date|2012|02|29}}<ref name="2.4Notes">{{cite web |url=https://sites.google.com/site/openelisglobal/openelis-global-2-4-release-notes |title=OpenELIS Global 2.4 Release Notes |publisher=University of Washington I-TECH |date=29 February 2012 |accessdate=27 April 2012}}</ref>
 
| discontinued          =  
 
| discontinued          =  
 
| frequently updated    = yes<!-- Release version update? Don't edit this page, just click on the version number! -->
 
| frequently updated    = yes<!-- Release version update? Don't edit this page, just click on the version number! -->
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| genre                  = [[Laboratory informatics]] software
 
| genre                  = [[Laboratory informatics]] software
 
| license                = Mozilla Public License 1.1
 
| license                = Mozilla Public License 1.1
| website                = [http://openelisglobal.org/ OpenELISGlobal.org]
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| website                = [http://openelis.org/ OpenELIS.org]
 
}}
 
}}
  
'''OpenELIS''' is a free and open-source [[laboratory information system]] (LIS) currently being developed by a team at the University of Washington.  
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'''OpenELIS''' is a free open-source [[laboratory information system]] (LIS) designed to act as a "software and business process framework for the robust functioning of [[Public health informatics|public health]] laboratories."<ref>{{cite web |url=https://sites.google.com/site/openelisglobal/history |title=History - OpenELIS Global |publisher=University of Washington I-TECH |accessdate=27 April 2012}}</ref> OpenELIS originally began as an open-source software project with numerous important collaborations, with contributions coming heavily from the Minnesota State Public Health Laboratory and the University of Iowa. The larger international influence of collaborators such as the Association of Public Health Laboratories (APHL), the U.S. [[Centers for Disease Control and Prevention]] (CDC), and the University of Washington's International Training and Education Center on HIV (I-TECH) later spread the OpenELIS technology (in the form of separate branches of the software) to other parts of the world, including Vietnam, Haiti, and Côte d'Ivoire. This culminated in the first public open-source release of the software under the name "OpenELIS Global" in 2012.
  
 
==Product history==
 
==Product history==
 +
 +
===Early project evolution===
  
 
The OpenELIS project evolved out of a partnership between the Public Health Informatics Institute (PHII) and the Association of Public Health Laboratories (APHL) in late 2002, with funding from the Robert Wood Johnson Foundation.<ref name="SHL1">{{cite journal |journal=Lab Link |year=January 2012 |volume=4 |issue=1 |title=OpenELIS comes home |publisher=State Hygienic Laboratory at The University of Iowa |url=http://www.shl.uiowa.edu/publications/lablink/201201/openelis.xml}}</ref><ref name="RWJF1">{{cite web |url=http://www.rwjf.org/reports/grr/053531.htm |title=Public Health Informatics Institute - Grant Results Reports |author=Wood, James |publisher=Robert Wood Johnson Foundation |date=February 2009 |accessdate=26 April 2012}}</ref> The members of the collaboration were tasked with a "ground-up" effort to develop business processes and system requirements for [[laboratory informatics]] systems in the realm of public health.<ref name="RWJF1" /><ref name="PHIN1">{{cite journal |journal=PHINews |year=2008 |volume=2 |issue=4 |pages=6–9 |title=OpenELIS: How a small lab community created a world-wide database |author=Jones, Jay |publisher=Centers for Disease Control and Prevention |format=PDF |url=http://www.cdc.gov/phin/library/documents/pdf/PHINews%20Volume%202%20Issue%204.pdf}}</ref> This work — together with six U.S. states — eventually led to the 2003 publication of a specifications document called ''Requirements for Public Health Laboratory Information Management Systems'', which detailed "all functions that a public health laboratory information system must be capable of supporting."<ref name="RWJF1" /><ref name="APHL1">{{cite web |url=http://www.aphl.org/aphlprograms/informatics/Pages/requirementslims.aspx |title=Requirements for Public Health Laboratory Information Management Systems |publisher=Association of Public Health Laboratories |date=September 2003 |accessdate=26 April 2012}}</ref>  
 
The OpenELIS project evolved out of a partnership between the Public Health Informatics Institute (PHII) and the Association of Public Health Laboratories (APHL) in late 2002, with funding from the Robert Wood Johnson Foundation.<ref name="SHL1">{{cite journal |journal=Lab Link |year=January 2012 |volume=4 |issue=1 |title=OpenELIS comes home |publisher=State Hygienic Laboratory at The University of Iowa |url=http://www.shl.uiowa.edu/publications/lablink/201201/openelis.xml}}</ref><ref name="RWJF1">{{cite web |url=http://www.rwjf.org/reports/grr/053531.htm |title=Public Health Informatics Institute - Grant Results Reports |author=Wood, James |publisher=Robert Wood Johnson Foundation |date=February 2009 |accessdate=26 April 2012}}</ref> The members of the collaboration were tasked with a "ground-up" effort to develop business processes and system requirements for [[laboratory informatics]] systems in the realm of public health.<ref name="RWJF1" /><ref name="PHIN1">{{cite journal |journal=PHINews |year=2008 |volume=2 |issue=4 |pages=6–9 |title=OpenELIS: How a small lab community created a world-wide database |author=Jones, Jay |publisher=Centers for Disease Control and Prevention |format=PDF |url=http://www.cdc.gov/phin/library/documents/pdf/PHINews%20Volume%202%20Issue%204.pdf}}</ref> This work — together with six U.S. states — eventually led to the 2003 publication of a specifications document called ''Requirements for Public Health Laboratory Information Management Systems'', which detailed "all functions that a public health laboratory information system must be capable of supporting."<ref name="RWJF1" /><ref name="APHL1">{{cite web |url=http://www.aphl.org/aphlprograms/informatics/Pages/requirementslims.aspx |title=Requirements for Public Health Laboratory Information Management Systems |publisher=Association of Public Health Laboratories |date=September 2003 |accessdate=26 April 2012}}</ref>  
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After the publication of this document representatives from three of the involved six states — Minnesota, Iowa, and Kansas — expressed interest in putting the ideas in the ''Requirements'' document into action in the form of an open-source [[laboratory information management system|LIMS]] system. From this desire another collaborative effort occurred to make such software a reality in the form of the Open Electronic Laboratory Information System or OpenELIS. Kansas eventually had to drop out of the project, but Minnesota and Iowa continued on with development in 2004, all while the APHL and the Centers for Disease Control and Prevention (CDC) increased interest in the project through their humanitarian work in parts of Africa and Vietnam.<ref name="PHIN1" /> However, as development on the software had been mostly U.S.-centric, an adaptation had to be developed, including language translations and regional addressing. Inevitably, this turned into its own independent branch of the software, including development by local Vietnamese, making the software truly international. Meanwhile domestic development continued in Minnesota and Iowa, with Minnesota's code base sharing similarities with Vietnam's, while Iowa was branching out with its own slightly-modified version.<ref name="PHIN1" />
 
After the publication of this document representatives from three of the involved six states — Minnesota, Iowa, and Kansas — expressed interest in putting the ideas in the ''Requirements'' document into action in the form of an open-source [[laboratory information management system|LIMS]] system. From this desire another collaborative effort occurred to make such software a reality in the form of the Open Electronic Laboratory Information System or OpenELIS. Kansas eventually had to drop out of the project, but Minnesota and Iowa continued on with development in 2004, all while the APHL and the Centers for Disease Control and Prevention (CDC) increased interest in the project through their humanitarian work in parts of Africa and Vietnam.<ref name="PHIN1" /> However, as development on the software had been mostly U.S.-centric, an adaptation had to be developed, including language translations and regional addressing. Inevitably, this turned into its own independent branch of the software, including development by local Vietnamese, making the software truly international. Meanwhile domestic development continued in Minnesota and Iowa, with Minnesota's code base sharing similarities with Vietnam's, while Iowa was branching out with its own slightly-modified version.<ref name="PHIN1" />
  
By early-2008 the Minnesota State Public Health Laboratory was testing its implementation of OpenLIMS, while Vietnam began testing theirs in February at the District Four Health Center in Ho Chi Minh City and the National Institute of Infectious and Tropical Diseases in Hanoi.<ref name="SHL1" /><ref name="APHL2">{{cite web |url=http://www.aphl.org/AboutAPHL/publications/Pages/Spring2008.aspx |title=Realizing the APHL Vision Around the Globe |author=Rogers, Karen |publisher=Association of Public Health Laboratories |date=Spring 2008 |accessdate=26 April 2012}}</ref> The Vietnam branch in particular was seen by the APHL as "a rare opportunity to learn from the mistakes we've made with laboratory information systems domestically and to implement them right the first time in these other countries."<ref name="APHL2" />
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By early 2008 the Minnesota State Public Health Laboratory was testing its implementation of OpenLIMS, while Vietnam began testing theirs in February at the District Four Health Center in Ho Chi Minh City and the National Institute of Infectious and Tropical Diseases in Hanoi.<ref name="SHL1" /><ref name="APHL2">{{cite web |url=http://www.aphl.org/AboutAPHL/publications/Pages/Spring2008.aspx |title=Realizing the APHL Vision Around the Globe |author=Rogers, Karen |publisher=Association of Public Health Laboratories |date=Spring 2008 |accessdate=26 April 2012}}</ref> The Vietnam branch in particular was seen by the APHL as "a rare opportunity to learn from the mistakes we've made with laboratory information systems domestically and to implement them right the first time in these other countries."<ref name="APHL2" />
  
In April 2008, the OpenELIS team reached out to the members and collaborators (including the University of Washington) of the OpenMRS open-source project<ref name="PIH-EMR">{{cite web |url=http://pihemr.wordpress.com/2008/04/27/collaboration-with-openelis-an-open-source-lab-information-system/ |title=Collaboration with OpenELIS, an open source lab information system |author=Blaya, Joaquin |publisher=Partners In Health Informatics Team |date=27 April 2008 |accessdate=26 April 2012}}</ref>, a project dedicated to supporting the delivery of health care in developing countries.<ref>{{cite journal |journal=AMIA Annual Symposium Proceedings |year=2006 |pages=529–33 |title=Cooking up an open source EMR for developing countries: OpenMRS - a recipe for successful collaboration |author=Mamlin, Burke W.; Paul G. Biondich; Ben A. Wolfe; Hamish Fraser; Darius Jazayeri; Christian Allen; Justin Miranda; William M. Tierney |url=http://www.ncbi.nlm.nih.gov/pubmed/17238397 |pmc=1839638 |pmid=17238397}}</ref> Weeks of discussions led to an agreement to create an OpenELIS developer community as well as a potential connecting of OpenELIS with OpenMRS.<ref name="PIH-EMR" />
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===OpenELIS branches out again===
  
At roughly the same time as OpenELIS was being developed, a different collaboration was occurring in Haiti between the University of Washington's Clinical Informatics Research Group, headed by Dr. Bill Lober, and the University of California, San Francisco. Known as the International Training and Education Center on HIV (I-TECH), this team worked with yet another group called the Clinical Informatics Research Group (CIRG) to improve the electronic medical record systems of Haiti. Through their involvement with OpenMRS collaboration, the University of Washington's Clinical Informatics Research Group learned of OpenELIS and thought it ideal for implementing in clinical labs throughout Haiti, including the Haiti National Lab.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/05/ |title=2008 May - OpenELIS Implementation in Haiti |publisher=Clinical Informatics Research Group at the University of Washington |date=May 2008 |accessdate=27 April 2012}}</ref>  
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In April 2008, the OpenELIS team reached out to the members and collaborators (including the University of Washington) of the [[OpenMRS]] open-source project<ref name="PIH-EMR">{{cite web |url=http://pihemr.wordpress.com/2008/04/27/collaboration-with-openelis-an-open-source-lab-information-system/ |title=Collaboration with OpenELIS, an open source lab information system |author=Blaya, Joaquin |publisher=Partners In Health Informatics Team |date=27 April 2008 |accessdate=26 April 2012}}</ref>, a project dedicated to supporting the delivery of health care in developing countries.<ref>{{cite journal |journal=AMIA Annual Symposium Proceedings |year=2006 |pages=529–33 |title=Cooking up an open source EMR for developing countries: OpenMRS - a recipe for successful collaboration |author=Mamlin, Burke W.; Paul G. Biondich; Ben A. Wolfe; Hamish Fraser; Darius Jazayeri; Christian Allen; Justin Miranda; William M. Tierney |url=http://www.ncbi.nlm.nih.gov/pubmed/17238397 |pmc=1839638 |pmid=17238397}}</ref> Weeks of discussions led to an agreement to create an OpenELIS developer community as well as a potential connecting of OpenELIS with OpenMRS.<ref name="PIH-EMR" />
 +
 
 +
At roughly the same time as OpenELIS was being developed, a different collaboration was occurring in Haiti between the University of Washington's Clinical Informatics Research Group, headed by Dr. Bill Lober, and the University of California, San Francisco. Known as the International Training and Education Center on HIV (I-TECH), this team worked with yet another group called the Clinical Informatics Research Group (CIRG) to improve the [[electronic medical record]] (EMR) systems of Haiti. Through their involvement with OpenMRS collaboration, the University of Washington's Clinical Informatics Research Group learned of OpenELIS and thought it ideal for implementing in clinical labs throughout Haiti, including the Haiti National Lab.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/05/ |title=2008 May - OpenELIS Implementation in Haiti |publisher=Clinical Informatics Research Group at the University of Washington |date=May 2008 |accessdate=27 April 2012}}</ref>  
  
 
By June 2008, work was beginning on a new branch of the OpenELIS software for Haiti, specifically as a branch of the version implemented in Vietnam,<ref>{{cite web |url=http://haitilis.wordpress.com/2008/06/04/version-genealogy/ |title=Version Genealogy |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=4 June 2008 |accessdate=27 April 2012}}</ref> though by November a conversion to the Minnesota/Iowa code base was completed "to take advantage of any updates" those development teams made.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/12/08/status-reports-for-last-xx-weeks-from-paul/ |title=Status Reports for last 4 weeks (from Paul) |author=Lober, Bill |publisher=Clinical Informatics Research Group at the University of Washington |date=8 December 2008 |accessdate=27 April 2012}}</ref> The seeds for a similar effort were planted in Côte d'Ivoire the following month.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/12/08/off-to-cote-divoire/ |title=Off to Cote d’Ivoire |author=Lober, Bill |publisher=Clinical Informatics Research Group at the University of Washington |date=8 December 2008 |accessdate=27 April 2012}}</ref> That same month a SourceForge beta project for OpenELIS was started.<ref>{{cite web |url=http://sourceforge.net/projects/openelis/ |title=OpenELIS - Laboratory Information System |publisher=SourceForge |accessdate=26 April 2012}}</ref>.  
 
By June 2008, work was beginning on a new branch of the OpenELIS software for Haiti, specifically as a branch of the version implemented in Vietnam,<ref>{{cite web |url=http://haitilis.wordpress.com/2008/06/04/version-genealogy/ |title=Version Genealogy |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=4 June 2008 |accessdate=27 April 2012}}</ref> though by November a conversion to the Minnesota/Iowa code base was completed "to take advantage of any updates" those development teams made.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/12/08/status-reports-for-last-xx-weeks-from-paul/ |title=Status Reports for last 4 weeks (from Paul) |author=Lober, Bill |publisher=Clinical Informatics Research Group at the University of Washington |date=8 December 2008 |accessdate=27 April 2012}}</ref> The seeds for a similar effort were planted in Côte d'Ivoire the following month.<ref>{{cite web |url=http://haitilis.wordpress.com/2008/12/08/off-to-cote-divoire/ |title=Off to Cote d’Ivoire |author=Lober, Bill |publisher=Clinical Informatics Research Group at the University of Washington |date=8 December 2008 |accessdate=27 April 2012}}</ref> That same month a SourceForge beta project for OpenELIS was started.<ref>{{cite web |url=http://sourceforge.net/projects/openelis/ |title=OpenELIS - Laboratory Information System |publisher=SourceForge |accessdate=26 April 2012}}</ref>.  
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In 2009 and 2010 the University of Washington group continued improving its Haiti branch of the software, demoing it on the University servers as upgrades were being made. In March 2009 the team demonstrated the Minnesota/Iowa and Haiti versions of the OpenELIS software to Joshua Franklin of the University of Washington Biomedical Informatics Core of the Institute of Translational Health Sciences, evaluating it as a potentially useful LIS.<ref>{{cite web |url=http://haitilis.wordpress.com/2009/03/09/haitiopenelis-status-report-for-week-ending-06032009/ |title=HaitiOpenElis status report for week ending 06/03/2009 |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=9 March 2009 |accessdate=27 April 2012}}</ref> As pilot implementations of OpenELIS 1.1 were being installed in Haitian labs, work also continued on the software in Côte d'Ivoire. On October 19, 2010, version 1.0 of the Côte d'Ivoire branch (referred to as "Retro-CI" for the location of its installation, the CDC Retrovirus Cote d′Ivoire [CDC Retro-CI]) of OpenELIS was installed in the country.<ref>{{cite web |url=http://cdilis.wordpress.com/2010/10/19/training-and-installation-at-retroci/ |title=Training and Installation at RetroCI |author=Nixon, Laura |publisher=Clinical Informatics Research Group at the University of Washington |date=19 October 2010 |accessdate=27 April 2012}}</ref>
 
In 2009 and 2010 the University of Washington group continued improving its Haiti branch of the software, demoing it on the University servers as upgrades were being made. In March 2009 the team demonstrated the Minnesota/Iowa and Haiti versions of the OpenELIS software to Joshua Franklin of the University of Washington Biomedical Informatics Core of the Institute of Translational Health Sciences, evaluating it as a potentially useful LIS.<ref>{{cite web |url=http://haitilis.wordpress.com/2009/03/09/haitiopenelis-status-report-for-week-ending-06032009/ |title=HaitiOpenElis status report for week ending 06/03/2009 |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=9 March 2009 |accessdate=27 April 2012}}</ref> As pilot implementations of OpenELIS 1.1 were being installed in Haitian labs, work also continued on the software in Côte d'Ivoire. On October 19, 2010, version 1.0 of the Côte d'Ivoire branch (referred to as "Retro-CI" for the location of its installation, the CDC Retrovirus Cote d′Ivoire [CDC Retro-CI]) of OpenELIS was installed in the country.<ref>{{cite web |url=http://cdilis.wordpress.com/2010/10/19/training-and-installation-at-retroci/ |title=Training and Installation at RetroCI |author=Nixon, Laura |publisher=Clinical Informatics Research Group at the University of Washington |date=19 October 2010 |accessdate=27 April 2012}}</ref>
  
2011 brought many changes to OpenELIS. In February 2011 an improved version 1.2 was implemented in Haiti, with a planned expanded version (dubbed as LNSP) of the software to be released to national public health reference laboratories in March.<ref>{{cite web |url=http://news.go2itech.org/2011/03/health-informatics-in-haiti-improving-access-to-data-improves-care/ |title=Health Informatics in Haiti: Improving Access to Data Improves Care |publisher=University of Washington I-TECH date=March 2011 |accessdate=27 March 2012}}</ref> On July 18, 2011, a new 2.0 version of Côte d'Ivoire's branch of OpenELIS was release, featuring a new menu system, better patient demographics handling, and additional bug fixes.<ref>{{cite web |url=http://cdilis.wordpress.com/2011/07/19/retroci-release-2-0-july-18th/ |title=HaitiOpenElis status report for week ending 06/03/2009 |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=9 March 2009 |accessdate=27 April 2012}}</ref>
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2011 brought many changes to OpenELIS. In February 2011 an improved version 1.2 was implemented in Haiti, with a planned expanded version of the software for the Laboratoire National de Santé Publique (LNSP) and other national public health reference laboratories in March.<ref>{{cite web |url=http://news.go2itech.org/2011/03/health-informatics-in-haiti-improving-access-to-data-improves-care/ |title=Health Informatics in Haiti: Improving Access to Data Improves Care |publisher=University of Washington I-TECH |date=March 2011 |accessdate=27 March 2012}}</ref> On July 18, 2011, a new 2.0 version of Côte d'Ivoire's branch of OpenELIS was release, featuring a new menu system, better patient demographics handling, and additional bug fixes.<ref>{{cite web |url=http://cdilis.wordpress.com/2011/07/19/retroci-release-2-0-july-18th/ |title=HaitiOpenElis status report for week ending 06/03/2009 |author=Schwartz, Paul |publisher=Clinical Informatics Research Group at the University of Washington |date=9 March 2009 |accessdate=27 April 2012}}</ref>  
  
==Features==
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Meanwhile years of work at the University of Iowa were culminating in a beta test of their OpenELIS software in the summer of 2011, eventually leading to a January 1, 2012 deployment of version 2.0 of the software at the University's State Hygienic Laboratory.<ref name="SHL1" /><ref>{{cite web |url=http://openelis.shl.uiowa.edu/?q=node/1 |title=OpenELIS Version 2 |publisher=State Hygienic Laboratory at the University of Iowa |date=3 January 2012 |accessdate=27 April 2012}}</ref><ref>{{cite web |url=http://www.shl.uiowa.edu/results/index.xml |title=Your Test Results |publisher=State Hygienic Laboratory at the University of Iowa |date=1 January 2012 |accessdate=27 April 2012}}</ref> Version 1.6.0 of the Vietnam branch was released on February 20, 2012.<ref>{{cite web |url=http://vietnamlis.wordpress.com/2012/02/20/update-release-1-6-0/ |title=Update Release 1.6.0 |publisher=Clinical Informatics Research Group at the University of Washington |date=20 February 2012 |accessdate=27 March 2012}}</ref>
  
 +
===Public open-source release===
  
 +
In 2012 the University of Washington I-TECH began hosting OpenELIS Global (now referred to as an Enterprise Laboratory Information System), an international version of the OpenELIS software. The first public open-source release of the software was with version 2.4 on February 29, 2012<ref name="2.4Notes" />, followed by a 2.5 release on March 30.<ref name="2.5Notes">{{cite web |url=https://sites.google.com/site/openelisglobal/openelis-global-2-5-release-notes |title=OpenELIS Global 2.5 Release Notes |publisher=University of Washington I-TECH |date=30 March 2012 |accessdate=27 April 2012}}</ref> The incrementation was chosen not as a numerical order of release, but rather as an identifying string as "Version.Pl​annedRelea​se.Unplann​edRelease (build number)," with versions incrementing yearly.<ref name="2.5Notes" />
  
 +
==Features==
 +
 +
Known features of OpenELIS Global include<ref name="2.4Notes" /><ref name="2.5Notes" />:
 +
 +
* sample entry
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* results entry
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* user management and administration
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* role-based security
 +
* reporting
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* data validation
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* workplans
 +
* patient reports
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* test catalogs
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* raw data export
 +
* instrument integration
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* English or French language configuration
 +
* iSante interoperability
  
 
==Hardware/software requirements==
 
==Hardware/software requirements==
  
 +
OpenELIS Global can be run in a virtual machine like VirtualBox or it can be built and installed from source code.
  
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===Virtual machine===
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 +
System requirements for an OpenELIS Global [https://sites.google.com/site/openelisglobal/downloads/vm-images virtual machine] installation will be based on the requirements to run the virtual machine. The Firefox Web browser is preferred to access the application, though other browsers should work.
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 +
===Source code===
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 +
To build and install from source, you'll need:
 +
 +
* Eclipse IDE for Java EE Developers
 +
* [[Apache Tomcat|Tomcat]] 5.5
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* [[PostgreSQL]] 8.3
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 +
More information can be found [https://sites.google.com/site/openelisglobal/downloads/source-code here] and [http://code.google.com/p/openelisglobal/ here].
  
 
==Videos, screenshots, and other media==
 
==Videos, screenshots, and other media==
  
==Entities using LAMA==
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===Videos===
 +
 
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The following videos exist for OpenELIS (circa 2009):
 +
 
 +
* [https://openelis.cirg.washington.edu/HaitiOpenElisDemo/index.html OpenELIS - Login]
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* [https://openelis.cirg.washington.edu/HaitiOpenElisDemo/SampleEntry.html OpenELIS - Sample Entry]
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* [https://openelis.cirg.washington.edu/HaitiOpenElisDemo/ResultsEntry.html OpenELIS - Results Entry]
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 +
===Demos===
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 +
Numerous demos of OpenELIS exist, in most of its branch forms, on the [https://sites.google.com/site/openelisglobal/demos OpenELIS Global website].
 +
 
 +
==Entities using OpenELIS==
 +
 
 +
The following entities are known to be utilizing some form of OpenELIS:
 +
 
 +
CDC Retrovirus Côte d'Ivoire, Clinical Informatics Research Group, Institut Pasteur Côte d'Ivoire, Laboratoire National de Santé Publique - Côte d'Ivoire, Laboratoire National de Santé Publique - Haiti, Minnesota State Public Health Laboratory, State Hygienic Laboratory at the University of Iowa
  
 
==Further reading==
 
==Further reading==
  
 
* {{cite journal |journal=PHINews |year=2008 |volume=2 |issue=4 |pages=6–9 |title=OpenELIS: How a small lab community created a world-wide database |author=Jones, Jay |publisher=Centers for Disease Control and Prevention |format=PDF |url=http://www.cdc.gov/phin/library/documents/pdf/PHINews%20Volume%202%20Issue%204.pdf}}
 
* {{cite journal |journal=PHINews |year=2008 |volume=2 |issue=4 |pages=6–9 |title=OpenELIS: How a small lab community created a world-wide database |author=Jones, Jay |publisher=Centers for Disease Control and Prevention |format=PDF |url=http://www.cdc.gov/phin/library/documents/pdf/PHINews%20Volume%202%20Issue%204.pdf}}
 
+
* {{cite journal |journal=AMIA Annual Symposium Proceedings |year=2006 |pages=529–33 |title=Cooking up an open source EMR for developing countries: OpenMRS - a recipe for successful collaboration |author=Mamlin, Burke W.; Paul G. Biondich; Ben A. Wolfe; Hamish Fraser; Darius Jazayeri; Christian Allen; Justin Miranda; William M. Tierney |url=http://www.ncbi.nlm.nih.gov/pubmed/17238397 |pmc=1839638 |pmid=17238397}}
  
 
==External links==
 
==External links==
  
 
+
* [http://openelisglobal.org/ OpenELIS Global]
 +
* [http://code.google.com/p/openelisglobal/ OpenELIS Global] development and repository site
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* [https://github.com/openelisglobal/openelisglobal-core/ OpenELIS at GitHub]
 +
* NOTE: The country specific blogs for Haiti and Cote d'Ivoire have been combined at: [http://openelis.blogspot.com/ OpenELIS Global blog]
 +
** blog for [http://haitilis.wordpress.com/ OpenELIS in Haiti]
 +
** blog for [http://cdilis.wordpress.com/ OpenELIS in Côte d'Ivoire]
 +
* blog for [http://vietnamlis.wordpress.com/ OpenELIS in Vietnam]
 +
* [http://www.go2itech.org/what-we-do/heath-systems-strengthening/informatics-program/informatics-program I-TECH] at the University of Washington
  
 
==References==
 
==References==
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[[Category:Laboratory information management systems (open source)]]
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[[Category:Public health software (open source)]]

Latest revision as of 18:45, 3 September 2014

OpenELIS
OpenELIS logo.jpg
Developer(s) University of Iowa, University of Washington
Initial release February 29, 2012 (2012-02-29)[1]
Stable release

9.1  (May 17, 2019; 18 months ago (2019-05-17))

[±]
Preview release none [±]
Written in Java
Operating system Cross-platform
Type Laboratory informatics software
License(s) Mozilla Public License 1.1
Website OpenELIS.org

OpenELIS is a free open-source laboratory information system (LIS) designed to act as a "software and business process framework for the robust functioning of public health laboratories."[2] OpenELIS originally began as an open-source software project with numerous important collaborations, with contributions coming heavily from the Minnesota State Public Health Laboratory and the University of Iowa. The larger international influence of collaborators such as the Association of Public Health Laboratories (APHL), the U.S. Centers for Disease Control and Prevention (CDC), and the University of Washington's International Training and Education Center on HIV (I-TECH) later spread the OpenELIS technology (in the form of separate branches of the software) to other parts of the world, including Vietnam, Haiti, and Côte d'Ivoire. This culminated in the first public open-source release of the software under the name "OpenELIS Global" in 2012.

Product history

Early project evolution

The OpenELIS project evolved out of a partnership between the Public Health Informatics Institute (PHII) and the Association of Public Health Laboratories (APHL) in late 2002, with funding from the Robert Wood Johnson Foundation.[3][4] The members of the collaboration were tasked with a "ground-up" effort to develop business processes and system requirements for laboratory informatics systems in the realm of public health.[4][5] This work — together with six U.S. states — eventually led to the 2003 publication of a specifications document called Requirements for Public Health Laboratory Information Management Systems, which detailed "all functions that a public health laboratory information system must be capable of supporting."[4][6]

After the publication of this document representatives from three of the involved six states — Minnesota, Iowa, and Kansas — expressed interest in putting the ideas in the Requirements document into action in the form of an open-source LIMS system. From this desire another collaborative effort occurred to make such software a reality in the form of the Open Electronic Laboratory Information System or OpenELIS. Kansas eventually had to drop out of the project, but Minnesota and Iowa continued on with development in 2004, all while the APHL and the Centers for Disease Control and Prevention (CDC) increased interest in the project through their humanitarian work in parts of Africa and Vietnam.[5] However, as development on the software had been mostly U.S.-centric, an adaptation had to be developed, including language translations and regional addressing. Inevitably, this turned into its own independent branch of the software, including development by local Vietnamese, making the software truly international. Meanwhile domestic development continued in Minnesota and Iowa, with Minnesota's code base sharing similarities with Vietnam's, while Iowa was branching out with its own slightly-modified version.[5]

By early 2008 the Minnesota State Public Health Laboratory was testing its implementation of OpenLIMS, while Vietnam began testing theirs in February at the District Four Health Center in Ho Chi Minh City and the National Institute of Infectious and Tropical Diseases in Hanoi.[3][7] The Vietnam branch in particular was seen by the APHL as "a rare opportunity to learn from the mistakes we've made with laboratory information systems domestically and to implement them right the first time in these other countries."[7]

OpenELIS branches out again

In April 2008, the OpenELIS team reached out to the members and collaborators (including the University of Washington) of the OpenMRS open-source project[8], a project dedicated to supporting the delivery of health care in developing countries.[9] Weeks of discussions led to an agreement to create an OpenELIS developer community as well as a potential connecting of OpenELIS with OpenMRS.[8]

At roughly the same time as OpenELIS was being developed, a different collaboration was occurring in Haiti between the University of Washington's Clinical Informatics Research Group, headed by Dr. Bill Lober, and the University of California, San Francisco. Known as the International Training and Education Center on HIV (I-TECH), this team worked with yet another group called the Clinical Informatics Research Group (CIRG) to improve the electronic medical record (EMR) systems of Haiti. Through their involvement with OpenMRS collaboration, the University of Washington's Clinical Informatics Research Group learned of OpenELIS and thought it ideal for implementing in clinical labs throughout Haiti, including the Haiti National Lab.[10]

By June 2008, work was beginning on a new branch of the OpenELIS software for Haiti, specifically as a branch of the version implemented in Vietnam,[11] though by November a conversion to the Minnesota/Iowa code base was completed "to take advantage of any updates" those development teams made.[12] The seeds for a similar effort were planted in Côte d'Ivoire the following month.[13] That same month a SourceForge beta project for OpenELIS was started.[14].

In 2009 and 2010 the University of Washington group continued improving its Haiti branch of the software, demoing it on the University servers as upgrades were being made. In March 2009 the team demonstrated the Minnesota/Iowa and Haiti versions of the OpenELIS software to Joshua Franklin of the University of Washington Biomedical Informatics Core of the Institute of Translational Health Sciences, evaluating it as a potentially useful LIS.[15] As pilot implementations of OpenELIS 1.1 were being installed in Haitian labs, work also continued on the software in Côte d'Ivoire. On October 19, 2010, version 1.0 of the Côte d'Ivoire branch (referred to as "Retro-CI" for the location of its installation, the CDC Retrovirus Cote d′Ivoire [CDC Retro-CI]) of OpenELIS was installed in the country.[16]

2011 brought many changes to OpenELIS. In February 2011 an improved version 1.2 was implemented in Haiti, with a planned expanded version of the software for the Laboratoire National de Santé Publique (LNSP) and other national public health reference laboratories in March.[17] On July 18, 2011, a new 2.0 version of Côte d'Ivoire's branch of OpenELIS was release, featuring a new menu system, better patient demographics handling, and additional bug fixes.[18]

Meanwhile years of work at the University of Iowa were culminating in a beta test of their OpenELIS software in the summer of 2011, eventually leading to a January 1, 2012 deployment of version 2.0 of the software at the University's State Hygienic Laboratory.[3][19][20] Version 1.6.0 of the Vietnam branch was released on February 20, 2012.[21]

Public open-source release

In 2012 the University of Washington I-TECH began hosting OpenELIS Global (now referred to as an Enterprise Laboratory Information System), an international version of the OpenELIS software. The first public open-source release of the software was with version 2.4 on February 29, 2012[1], followed by a 2.5 release on March 30.[22] The incrementation was chosen not as a numerical order of release, but rather as an identifying string as "Version.Pl​annedRelea​se.Unplann​edRelease (build number)," with versions incrementing yearly.[22]

Features

Known features of OpenELIS Global include[1][22]:

  • sample entry
  • results entry
  • user management and administration
  • role-based security
  • reporting
  • data validation
  • workplans
  • patient reports
  • test catalogs
  • raw data export
  • instrument integration
  • English or French language configuration
  • iSante interoperability

Hardware/software requirements

OpenELIS Global can be run in a virtual machine like VirtualBox or it can be built and installed from source code.

Virtual machine

System requirements for an OpenELIS Global virtual machine installation will be based on the requirements to run the virtual machine. The Firefox Web browser is preferred to access the application, though other browsers should work.

Source code

To build and install from source, you'll need:

More information can be found here and here.

Videos, screenshots, and other media

Videos

The following videos exist for OpenELIS (circa 2009):

Demos

Numerous demos of OpenELIS exist, in most of its branch forms, on the OpenELIS Global website.

Entities using OpenELIS

The following entities are known to be utilizing some form of OpenELIS:

CDC Retrovirus Côte d'Ivoire, Clinical Informatics Research Group, Institut Pasteur Côte d'Ivoire, Laboratoire National de Santé Publique - Côte d'Ivoire, Laboratoire National de Santé Publique - Haiti, Minnesota State Public Health Laboratory, State Hygienic Laboratory at the University of Iowa

Further reading

External links

References

  1. 1.0 1.1 1.2 "OpenELIS Global 2.4 Release Notes". University of Washington I-TECH. 29 February 2012. https://sites.google.com/site/openelisglobal/openelis-global-2-4-release-notes. Retrieved 27 April 2012. 
  2. "History - OpenELIS Global". University of Washington I-TECH. https://sites.google.com/site/openelisglobal/history. Retrieved 27 April 2012. 
  3. 3.0 3.1 3.2 "OpenELIS comes home". Lab Link (State Hygienic Laboratory at The University of Iowa) 4 (1). January 2012. http://www.shl.uiowa.edu/publications/lablink/201201/openelis.xml. 
  4. 4.0 4.1 4.2 Wood, James (February 2009). "Public Health Informatics Institute - Grant Results Reports". Robert Wood Johnson Foundation. http://www.rwjf.org/reports/grr/053531.htm. Retrieved 26 April 2012. 
  5. 5.0 5.1 5.2 Jones, Jay (2008). "OpenELIS: How a small lab community created a world-wide database" (PDF). PHINews (Centers for Disease Control and Prevention) 2 (4): 6–9. http://www.cdc.gov/phin/library/documents/pdf/PHINews%20Volume%202%20Issue%204.pdf. 
  6. "Requirements for Public Health Laboratory Information Management Systems". Association of Public Health Laboratories. September 2003. http://www.aphl.org/aphlprograms/informatics/Pages/requirementslims.aspx. Retrieved 26 April 2012. 
  7. 7.0 7.1 Rogers, Karen (Spring 2008). "Realizing the APHL Vision Around the Globe". Association of Public Health Laboratories. http://www.aphl.org/AboutAPHL/publications/Pages/Spring2008.aspx. Retrieved 26 April 2012. 
  8. 8.0 8.1 Blaya, Joaquin (27 April 2008). "Collaboration with OpenELIS, an open source lab information system". Partners In Health Informatics Team. http://pihemr.wordpress.com/2008/04/27/collaboration-with-openelis-an-open-source-lab-information-system/. Retrieved 26 April 2012. 
  9. Mamlin, Burke W.; Paul G. Biondich; Ben A. Wolfe; Hamish Fraser; Darius Jazayeri; Christian Allen; Justin Miranda; William M. Tierney (2006). "Cooking up an open source EMR for developing countries: OpenMRS - a recipe for successful collaboration". AMIA Annual Symposium Proceedings: 529–33. PMC 1839638. PMID 17238397. http://www.ncbi.nlm.nih.gov/pubmed/17238397. 
  10. "2008 May - OpenELIS Implementation in Haiti". Clinical Informatics Research Group at the University of Washington. May 2008. http://haitilis.wordpress.com/2008/05/. Retrieved 27 April 2012. 
  11. Schwartz, Paul (4 June 2008). "Version Genealogy". Clinical Informatics Research Group at the University of Washington. http://haitilis.wordpress.com/2008/06/04/version-genealogy/. Retrieved 27 April 2012. 
  12. Lober, Bill (8 December 2008). "Status Reports for last 4 weeks (from Paul)". Clinical Informatics Research Group at the University of Washington. http://haitilis.wordpress.com/2008/12/08/status-reports-for-last-xx-weeks-from-paul/. Retrieved 27 April 2012. 
  13. Lober, Bill (8 December 2008). "Off to Cote d’Ivoire". Clinical Informatics Research Group at the University of Washington. http://haitilis.wordpress.com/2008/12/08/off-to-cote-divoire/. Retrieved 27 April 2012. 
  14. "OpenELIS - Laboratory Information System". SourceForge. http://sourceforge.net/projects/openelis/. Retrieved 26 April 2012. 
  15. Schwartz, Paul (9 March 2009). "HaitiOpenElis status report for week ending 06/03/2009". Clinical Informatics Research Group at the University of Washington. http://haitilis.wordpress.com/2009/03/09/haitiopenelis-status-report-for-week-ending-06032009/. Retrieved 27 April 2012. 
  16. Nixon, Laura (19 October 2010). "Training and Installation at RetroCI". Clinical Informatics Research Group at the University of Washington. http://cdilis.wordpress.com/2010/10/19/training-and-installation-at-retroci/. Retrieved 27 April 2012. 
  17. "Health Informatics in Haiti: Improving Access to Data Improves Care". University of Washington I-TECH. March 2011. http://news.go2itech.org/2011/03/health-informatics-in-haiti-improving-access-to-data-improves-care/. Retrieved 27 March 2012. 
  18. Schwartz, Paul (9 March 2009). "HaitiOpenElis status report for week ending 06/03/2009". Clinical Informatics Research Group at the University of Washington. http://cdilis.wordpress.com/2011/07/19/retroci-release-2-0-july-18th/. Retrieved 27 April 2012. 
  19. "OpenELIS Version 2". State Hygienic Laboratory at the University of Iowa. 3 January 2012. http://openelis.shl.uiowa.edu/?q=node/1. Retrieved 27 April 2012. 
  20. "Your Test Results". State Hygienic Laboratory at the University of Iowa. 1 January 2012. http://www.shl.uiowa.edu/results/index.xml. Retrieved 27 April 2012. 
  21. "Update Release 1.6.0". Clinical Informatics Research Group at the University of Washington. 20 February 2012. http://vietnamlis.wordpress.com/2012/02/20/update-release-1-6-0/. Retrieved 27 March 2012. 
  22. 22.0 22.1 22.2 "OpenELIS Global 2.5 Release Notes". University of Washington I-TECH. 30 March 2012. https://sites.google.com/site/openelisglobal/openelis-global-2-5-release-notes. Retrieved 27 April 2012.