Author: rodche
Date: 2011-11-23 17:48:23 -0800 (Wed, 23 Nov 2011)
New Revision: 27602
Modified:
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/CPathWebServiceImpl.java
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/view/SelectPhysicalEntity.java
Log:
Mainly, a bug (search w/o organism filter) - fixed.
Modified:
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/CPathWebServiceImpl.java
===================================================================
---
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/CPathWebServiceImpl.java
2011-11-24 01:24:39 UTC (rev 27601)
+++
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/CPathWebServiceImpl.java
2011-11-24 01:48:23 UTC (rev 27602)
@@ -65,8 +65,8 @@
if(LOGGER.isDebugEnabled())
LOGGER.debug("cPath2Url=" + client.getEndPointURL());
-
client.setOrganisms(Collections.singleton(String.valueOf(ncbiTaxonomyId)));
- //protocol.setCommand(CPathProtocol.COMMAND_SEARCH);
+ if(ncbiTaxonomyId > 0)
+
client.setOrganisms(Collections.singleton(String.valueOf(ncbiTaxonomyId)));
client.setType("PhysicalEntity");
try {
Modified:
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/view/SelectPhysicalEntity.java
===================================================================
---
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/view/SelectPhysicalEntity.java
2011-11-24 01:24:39 UTC (rev 27601)
+++
csplugins/trunk/toronto/rodche/cpathsquared-impl/src/main/java/org/cytoscape/cpathsquared/internal/view/SelectPhysicalEntity.java
2011-11-24 01:48:23 UTC (rev 27602)
@@ -50,6 +50,9 @@
html.append ("<h2>" + searchHit.getName() + "</h2>");
html.append ("<h3>Class: " + searchHit.getBiopaxClass() + "</h3>");
+ html.append ("<h3>URI: " + searchHit.getUri() + "</h3>");
+ if(searchHit.getActualHitUri() != null)
+ html.append ("<h3>Child (actual) hit URI: " +
searchHit.getActualHitUri() + "</h3>");
List<String> items = searchHit.getOrganism();
if (items != null && !items.isEmpty()) {
--
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