Revision: 16256
http://gate.svn.sourceforge.net/gate/?rev=16256&view=rev
Author: ian_roberts
Date: 2012-11-12 15:39:11 +0000 (Mon, 12 Nov 2012)
Log Message:
-----------
Metadata.
Modified Paths:
--------------
gate/trunk/plugins/Tagger_Framework/resources/AbGene/AbGene.gapp
Added Paths:
-----------
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/icon.png
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/long-desc.html
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/metadata.xml
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/short-desc.html
Added:
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/icon.png
===================================================================
(Binary files differ)
Property changes on:
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/icon.png
___________________________________________________________________
Added: svn:mime-type
+ application/octet-stream
Added:
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/long-desc.html
===================================================================
---
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/long-desc.html
(rev 0)
+++
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/long-desc.html
2012-11-12 15:39:11 UTC (rev 16256)
@@ -0,0 +1,8 @@
+<p>Tag mentions of <em>gene</em> entities in text using the
+<a href="ftp://ftp.ncbi.nlm.nih.gov/pub/tanabe/AbGene/";>AbGene Tagger</a>.
+This tagger was trained on Medline abstracts, and performance may vary on
+other types of input.</p>
+
+<p>For full details, see Tanabe and Wilbur (2002) "Tagging gene and protein
+names in biomedical text", <em>Bioinformatics</em> 18(8):1124&endash;1132,
+<a
href="http://dx.doi.org/10.1093/bioinformatics/18.8.1124";>doi:10.1093/bioinformatics/18.8.1124</a>.</p>
Added:
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/metadata.xml
===================================================================
---
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/metadata.xml
(rev 0)
+++
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/metadata.xml
2012-11-12 15:39:11 UTC (rev 16256)
@@ -0,0 +1,4 @@
+<?xml version="1.0" encoding="UTF-8" ?>
+<metadata xmlns="http://gate.ac.uk/ns/pipeline-metadata";>
+ <pipeline-name>AbGene Tagger</pipeline-name>
+</metadata>
Added:
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/short-desc.html
===================================================================
---
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/short-desc.html
(rev 0)
+++
gate/trunk/plugins/Tagger_Framework/resources/AbGene/.abgene-metadata/short-desc.html
2012-11-12 15:39:11 UTC (rev 16256)
@@ -0,0 +1 @@
+Tag mentions of <em>gene</em> entities in text using the AbGene tagger.
Modified: gate/trunk/plugins/Tagger_Framework/resources/AbGene/AbGene.gapp
===================================================================
--- gate/trunk/plugins/Tagger_Framework/resources/AbGene/AbGene.gapp
2012-11-12 15:38:22 UTC (rev 16255)
+++ gate/trunk/plugins/Tagger_Framework/resources/AbGene/AbGene.gapp
2012-11-12 15:39:11 UTC (rev 16256)
@@ -2,12 +2,9 @@
<urlList class="gate.util.persistence.CollectionPersistence">
<localList>
<gate.util.persistence.PersistenceManager-URLHolder>
- <urlString>$relpath$../../../TaggerFramework</urlString>
+ <urlString>$relpath$../../</urlString>
</gate.util.persistence.PersistenceManager-URLHolder>
<gate.util.persistence.PersistenceManager-URLHolder>
- <urlString>$relpath$../../../Tagger_Framework/</urlString>
- </gate.util.persistence.PersistenceManager-URLHolder>
- <gate.util.persistence.PersistenceManager-URLHolder>
<urlString>$relpath$../../../ANNIE/</urlString>
</gate.util.persistence.PersistenceManager-URLHolder>
</localList>
@@ -249,7 +246,14 @@
</initParams>
<features class="gate.util.persistence.MapPersistence">
<mapType>gate.util.SimpleFeatureMapImpl</mapType>
- <localMap/>
+ <localMap>
+ <entry>
+ <string>gate.app.MetadataURL</string>
+ <gate.util.persistence.PersistenceManager-URLHolder>
+ <urlString>$relpath$.abgene-metadata/metadata.xml</urlString>
+ </gate.util.persistence.PersistenceManager-URLHolder>
+ </entry>
+ </localMap>
</features>
</application>
-</gate.util.persistence.GateApplication>
\ No newline at end of file
+</gate.util.persistence.GateApplication>
This was sent by the SourceForge.net collaborative development platform, the
world's largest Open Source development site.
------------------------------------------------------------------------------
Everyone hates slow websites. So do we.
Make your web apps faster with AppDynamics
Download AppDynamics Lite for free today:
http://p.sf.net/sfu/appdyn_d2d_nov
_______________________________________________
GATE-cvs mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/gate-cvs
