BioPortal Reference Plugin - Revision history

TaniaTudorache at 23:09, May 9, 2014

2014-05-09T23:09:18Z

TaniaTudorache at 23:09, May 9, 2014

2014-05-09T23:09:05Z

TaniaTudorache: /* Overview */

2012-06-13T19:27:52Z

‎Overview

TaniaTudorache: /* Download */

2012-06-13T18:03:32Z

‎Download

TaniaTudorache at 23:18, July 15, 2011

2011-07-15T23:18:59Z

TaniaTudorache at 23:18, July 15, 2011

2011-07-15T23:18:34Z

TaniaTudorache at 23:13, July 15, 2011

2011-07-15T23:13:25Z

TaniaTudorache at 23:13, July 15, 2011

2011-07-15T23:13:10Z

TaniaTudorache: /* Download */

2011-07-15T21:10:40Z

‎Download

TaniaTudorache at 23:49, May 3, 2011

2011-05-03T23:49:39Z

@@ Line 24: / Line 24: @@
 <div style="background: #FDECE7; border: 2px solid #AE5B08; padding: 10px 15px 10px 20px; margin: 30px 430px 0 0; ">
-'''As of May 2014, the BioPortal Import plugin does not work anymore.'''
+'''As of May 2014, the BioPortal Reference plugin does not work anymore.'''
 BioPortal has updated its [http://data.bioontology.org/documentation REST APIs] and the plugin has not been ported to the new API, yet.

← Older revision		Revision as of 23:09, May 9, 2014
Line 21:		Line 21:

	= Overview =		= Overview =
		+
		+	<div style="background: #FDECE7; border: 2px solid #AE5B08; padding: 10px 15px 10px 20px; margin: 30px 430px 0 0; ">
		+
		+	'''As of May 2014, the BioPortal Import plugin does not work anymore.'''
		+
		+	BioPortal has updated its [http://data.bioontology.org/documentation REST APIs] and the plugin has not been ported to the new API, yet.
		+
		+	</div>

	The BioPortal Reference Plugin allows the user '''to insert references to terms, classes, etc. from external ontologies and terminologies''' stored in [http://bioportal.bioontology.org/ BioPortal] into his or her own ontology without the need to import the external ontology. The plugin allows the '''easy navigation''' from the domain ontology in Protege to the external ontology by simply clicking on the generated '''hyperlink of a reference'''. The hyperlink will take the user directly into BioPortal to the referenced term. The user may also search BioPortal for alternative terms.		The BioPortal Reference Plugin allows the user '''to insert references to terms, classes, etc. from external ontologies and terminologies''' stored in [http://bioportal.bioontology.org/ BioPortal] into his or her own ontology without the need to import the external ontology. The plugin allows the '''easy navigation''' from the domain ontology in Protege to the external ontology by simply clicking on the generated '''hyperlink of a reference'''. The hyperlink will take the user directly into BioPortal to the referenced term. The user may also search BioPortal for alternative terms.

@@ Line 24: / Line 24: @@
 The BioPortal Reference Plugin allows the user '''to insert references to terms, classes, etc. from external ontologies and terminologies''' stored in [http://bioportal.bioontology.org/ BioPortal] into his or her own ontology without the need to import the external ontology. The plugin allows the '''easy navigation''' from the domain ontology in Protege to the external ontology by simply clicking on the generated '''hyperlink of a reference'''. The hyperlink will take the user directly into BioPortal to the referenced term. The user may also search BioPortal for alternative terms.
-The plugin is configurable and works with Protege OWL, RDF, Frames, client-server and all backends of Protege.
+The plugin is configurable and works with Protege OWL, RDF, Frames, client-server and all backends of Protege. This plugin is currently available for Protege 3.x series.
 The plugin is a slot widget that can be attached to any object or annotation property in OWL, or any slot with value type instance, class or any in Frames.
@@ Line 30: / Line 30: @@
 '''If you are interested in importing classes from BioPortal ontologies (rather than referencing them through an instance object), please use the [[BioPortal_Import_Plugin|BioPortal Import Plugin]].'''
 = How does it look like =

@@ Line 128: / Line 128: @@
 The plugin is distributed with the Protege 3.4.2 release and newer. However, we might need to make changes to the plugin to keep in sync with the BioPortal releases and to add enhancements and bug fixes. For this reason, we also provide separate downloads for the plugin.
-We have a patch version of the plugin that can be downloaded from [http://smi-protege.stanford.edu/collab-protege/tmp/bioportalReference.zip here]. Unzip it into your Protege 3.4.x plugin folder. (Make sure you override the old versions of the plugin.)
+We have a patch version of the plugin that can be downloaded from [http://smi-protege.stanford.edu/collab-protege/bioportalReference.zip here]. Unzip it into your Protege 3.x plugin folder. (Make sure you override the old versions of the plugin.)
 The source code of the plugin is available in our SVN: http://smi-protege.stanford.edu/svn/bioportal-reference-plugin/trunk/ and it is licensed under Mozilla Public License.

@@ Line 14: / Line 14: @@
 |Topic4=Terminologies
 |Topic5=Import
-|License=Mozilla
+|License=Mozilla Public License (MPL)
 |Affiliation1=Stanford Center for Biomedical Informatics Research
 }}

@@ Line 8: / Line 8: @@
 |HomepageURL=http://protegewiki.stanford.edu/index.php/BioPortal_Reference_Plugin
 |DeveloperID1=Tania Tudorache
-|LastUpdated=July 28, 2009
+|LastUpdated=July 15, 2011
 |Topic1=Biomedical Informatics
 |Topic2=Search

← Older revision		Revision as of 23:13, July 15, 2011
Line 27:		Line 27:

	The plugin is a slot widget that can be attached to any object or annotation property in OWL, or any slot with value type instance, class or any in Frames.		The plugin is a slot widget that can be attached to any object or annotation property in OWL, or any slot with value type instance, class or any in Frames.
		+
		+
		+	'''If you are interested in importing classes from BioPortal ontologies (rather than referencing them through an instance object), please use the [[BioPortal_Import_Plugin\|BioPortal Import Plugin]].'''

@@ Line 123: / Line 123: @@
 = Download =
-The plugin is distributed with the Protege 3.4.2 release and newer. However, we might need to make changes to the plugin to keep in sync with the BioPortal releases. For this reason, we also provide separate downloads for the plugin.
+The plugin is distributed with the Protege 3.4.2 release and newer. However, we might need to make changes to the plugin to keep in sync with the BioPortal releases and to add enhancements and bug fixes. For this reason, we also provide separate downloads for the plugin.
-We have a patch version of the plugin for Protege 3.4.6, that can be downloaded from [http://smi-protege.stanford.edu/collab-protege/tmp/bioportalReference.zip here]. Unzip it into your Protege 3.4.x plugin folder. (Make sure you override the old versions of the plugin.)
+We have a patch version of the plugin that can be downloaded from [http://smi-protege.stanford.edu/collab-protege/tmp/bioportalReference.zip here]. Unzip it into your Protege 3.4.x plugin folder. (Make sure you override the old versions of the plugin.)
 The source code of the plugin is available in our SVN: http://smi-protege.stanford.edu/svn/bioportal-reference-plugin/trunk/ and it is licensed under Mozilla Public License.
 = Developer's Guide =