Protege Wiki - User contributions [en]

Advanced Annotation Search 1.0.1

2012-08-10T12:08:21Z

Mark Helenurm: Removing download URL. I'm updating the github source and so the link will be dead shortly.

{{VersionOfPlugin
|VersionOf=Advanced Annotation Search
|Number=1.0.1
|LastUpdate=7/17/2012
|Changelog=Initial Release
}}

Advanced Annotation Search

2012-07-18T01:52:48Z

Mark Helenurm: /* Basic Syntax */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Topic2=Semantic Web
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}
<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item in between quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (ingeniously called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all entities that have comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols (what you type in the search box) !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

==== Single-Term Expressions ====
"dermal bone is absent"

puppies

"im in here somewhere"

==== Two-Term Expressions ====
comment contains "dermal bone ain't here" or comment contains "dorsal fin is present"

age >= 49 and age <= 70

comment !~ "confused" or comment ~ "i cnat spel wright"

==== Three or More-Term Expressions ====
(label contains "yes i'm here" || comment contains "yes i'm here") & age < 50

(comment ~ "dermal bone" ^ comment ~ "dorsal fin") && age > 30 && yeardiscovered == 1990

Advanced Annotation Search

2012-07-18T01:52:11Z

Mark Helenurm: /* Operators */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Topic2=Semantic Web
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}
<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item in between quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols (what you type in the search box) !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

==== Single-Term Expressions ====
"dermal bone is absent"

puppies

"im in here somewhere"

==== Two-Term Expressions ====
comment contains "dermal bone ain't here" or comment contains "dorsal fin is present"

age >= 49 and age <= 70

comment !~ "confused" or comment ~ "i cnat spel wright"

==== Three or More-Term Expressions ====
(label contains "yes i'm here" || comment contains "yes i'm here") & age < 50

(comment ~ "dermal bone" ^ comment ~ "dorsal fin") && age > 30 && yeardiscovered == 1990

Advanced Annotation Search

2012-07-18T01:50:27Z

Mark Helenurm: /* Basic Syntax */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Topic2=Semantic Web
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}
<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item in between quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

==== Single-Term Expressions ====
"dermal bone is absent"

puppies

"im in here somewhere"

==== Two-Term Expressions ====
comment contains "dermal bone ain't here" or comment contains "dorsal fin is present"

age >= 49 and age <= 70

comment !~ "confused" or comment ~ "i cnat spel wright"

==== Three or More-Term Expressions ====
(label contains "yes i'm here" || comment contains "yes i'm here") & age < 50

(comment ~ "dermal bone" ^ comment ~ "dorsal fin") && age > 30 && yeardiscovered == 1990

Advanced Annotation Search

2012-07-18T01:47:21Z

Mark Helenurm:

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Topic2=Semantic Web
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}
<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item separated by quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

==== Single-Term Expressions ====
"dermal bone is absent"

puppies

"im in here somewhere"

==== Two-Term Expressions ====
comment contains "dermal bone ain't here" or comment contains "dorsal fin is present"

age >= 49 and age <= 70

comment !~ "confused" or comment ~ "i cnat spel wright"

==== Three or More-Term Expressions ====
(label contains "yes i'm here" || comment contains "yes i'm here") & age < 50

(comment ~ "dermal bone" ^ comment ~ "dorsal fin") && age > 30 && yeardiscovered == 1990

Advanced Annotation Search

2012-07-18T01:44:17Z

Mark Helenurm: /* Examples */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}

<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item separated by quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

==== Single-Term Expressions ====
"dermal bone is absent"

puppies

"im in here somewhere"

==== Two-Term Expressions ====
comment contains "dermal bone ain't here" or comment contains "dorsal fin is present"

age >= 49 and age <= 70

comment !~ "confused" or comment ~ "i cnat spel wright"

==== Three or More-Term Expressions ====
(label contains "yes i'm here" || comment contains "yes i'm here") & age < 50

(comment ~ "dermal bone" ^ comment ~ "dorsal fin") && age > 30 && yeardiscovered == 1990

Advanced Annotation Search

2012-07-18T01:34:25Z

Mark Helenurm: /* Logical Operators */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}

<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item separated by quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}
(order of operations corresponds to table position)

=== Examples ===

lots of text

Advanced Annotation Search

2012-07-18T01:33:44Z

Mark Helenurm: /* Logical Operators */

{{Plugin
|Description=A search function to find entities based on annotation data.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}

<div style="display:block; float:left; width:100%;">

== Usage Guide ==
=== Basic Syntax ===

Expressions you type in the text field are broken down into "terms". A term is either a single word, or an item separated by quotation marks ("").
For a basic search, you can type a single term into the box (e.g. "dorsal fin" or puppies).
For a more complex expression, you use groups of three terms (called triples), which are broken down into the annotation type, the operator, and the search term. For example, if you want all comment annotations that contain the term "dermal bone", you would search: comment contains "dermal bone".
If you want to search for an even more complex expression (for example, you know the comment annotation contains the phrase "phenoscape" and the age annotation is greater than 19), you break the two search terms up with a logical operator (and, or, exclusiveor). So in this example, your search string would be: comment contains phenoscape and age > 19.

=== Operators ===

{| class="wikitable"
|-
! Operation !! Operator Symbols !! Domain
|-
| Contains || contains, ~ || Strings
|-
| Doesn't Contain || doesntcontain, !~ || Strings
|-
| Equals || equals, isequalto, =, == || Strings, Numbers
|-
| Doesn't Equal || doesntequal, != || Strings, Numbers
|-
| Greater Than || greaterthan, > || Numbers
|-
| Less Than || lessthan, < || Numbers
|-
| Greater Than or Equal to || greaterthanorequalto, gequalto, gequal, >= || Numbers
|-
| Less Than or Equal to || lessthanorequalto, lequalto, lequal, <= || Numbers
|}

=== Logical Operators ===

The order of precedence corresponds to it's position in the table

{| class="wikitable"
|-
! Logical Operation !! Operator Symbols
|-
| Groupers || (, )
|-
| And || and, &, &&
|-
| Exclusive Or || exclusiveor, ^
|-
| Or || <NOWIKI>or, |, ||</NOWIKI>
|}

=== Examples ===

lots of text

Advanced Annotation Search

2012-07-18T01:27:27Z

Mark Helenurm: /* Operators */

Advanced Annotation Search

2012-07-18T01:26:52Z

Mark Helenurm: /* Operators */

Advanced Annotation Search

2012-07-18T01:16:00Z

Mark Helenurm: /* Usage Guide */

Advanced Annotation Search

2012-07-18T01:14:40Z

Mark Helenurm: /* Usage Guide */

Advanced Annotation Search

2012-07-18T01:14:09Z

Mark Helenurm: /* Basic Syntax */

Advanced Annotation Search

2012-07-18T01:01:52Z

Mark Helenurm:

Advanced Annotation Search

2012-07-18T00:55:22Z

Mark Helenurm:

Advanced Annotation Search

2012-07-18T00:54:56Z

Mark Helenurm:

Advanced Annotation Search

2012-07-18T00:53:55Z

Mark Helenurm:

Advanced Annotation Search

2012-07-18T00:53:34Z

Mark Helenurm:

Advanced Annotation Search 1.0.1

2012-07-18T00:41:29Z

Mark Helenurm:

{{VersionOfPlugin
|VersionOf=Advanced Annotation Search
|Number=1.0.1
|LastUpdate=7/17/2012
|File=https://raw.github.com/mhelenurm/SearchPlugin/master/org.usd.edu.search.jar
|Changelog=Initial Release
}}

Advanced Annotation Search 1.0.1

2012-07-18T00:40:52Z

Mark Helenurm:

{{VersionOfPlugin
|VersionOf=Advanced Annotation Search
|Number=1.0.1
|LastUpdate=now
|File=https://raw.github.com/mhelenurm/SearchPlugin/master/org.usd.edu.search.jar
|Changelog=Initial Release
}}

Advanced Annotation Search 1.0.1

2012-07-18T00:40:15Z

Mark Helenurm:

Advanced Annotation Search 1.0.1

2012-07-18T00:39:16Z

Mark Helenurm: Created page with "{{VersionOfPlugin |VersionOf=Advanced Annotation Search |Number=1.0.1 |LastUpdate=now |File=https://raw.github.com/mhelenurm/SearchPlugin/master/org.usd.edu.search.jar |Changelog..."

{{VersionOfPlugin
|VersionOf=Advanced Annotation Search
|Number=1.0.1
|LastUpdate=now
|File=https://raw.github.com/mhelenurm/SearchPlugin/master/org.usd.edu.search.jar
|Changelog=Initial Release
}}

Advanced Annotation Search

2012-07-17T20:32:05Z

Mark Helenurm:

Advanced Annotation Search

2012-07-17T20:25:54Z

Mark Helenurm: Created page with "{{Plugin |Description=This plugin allows users to search for entities in an ontology based on information stored in annotations. |PluginType=View |ForApplication1=Protege-OWL |Sc..."

{{Plugin
|Description=This plugin allows users to search for entities in an ontology based on information stored in annotations.
|PluginType=View
|ForApplication1=Protege-OWL
|Screenshot=annotationsearchscreenshot.png
|DeveloperID1=Mark Helenurm
|LastUpdated=July 17, 2012
|Topic1=Search
|Affiliation1=Phenoscape Project
|Affiliation2=University of South Dakota
}}

File:Annotationsearchscreenshot.png

2012-07-17T20:19:42Z

Mark Helenurm: A screenshot of the

A screenshot of the