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[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
archaeopteryx
/
UrlTreeReader.java
diff --git
a/forester/java/src/org/forester/archaeopteryx/UrlTreeReader.java
b/forester/java/src/org/forester/archaeopteryx/UrlTreeReader.java
index
7d88a31
..
1fb4a59
100644
(file)
--- a/
forester/java/src/org/forester/archaeopteryx/UrlTreeReader.java
+++ b/
forester/java/src/org/forester/archaeopteryx/UrlTreeReader.java
@@
-59,6
+59,11
@@
public class UrlTreeReader implements Runnable {
_webservice_client_index = webservice_client_index;
}
_webservice_client_index = webservice_client_index;
}
+ @Override
+ public void run() {
+ readPhylogeniesFromWebservice();
+ }
+
synchronized void readPhylogeniesFromWebservice() {
final long start_time = new Date().getTime();
URL url = null;
synchronized void readPhylogeniesFromWebservice() {
final long start_time = new Date().getTime();
URL url = null;
@@
-109,8
+114,7
@@
public class UrlTreeReader implements Runnable {
break;
case NH_EXTRACT_TAXONOMY:
parser = new NHXParser();
break;
case NH_EXTRACT_TAXONOMY:
parser = new NHXParser();
- ( ( NHXParser ) parser )
- .setTaxonomyExtraction( NHXParser.TAXONOMY_EXTRACTION.PFAM_STYLE_STRICT );
+ ( ( NHXParser ) parser ).setTaxonomyExtraction( NHXParser.TAXONOMY_EXTRACTION.AGGRESSIVE );
( ( NHXParser ) parser ).setReplaceUnderscores( false );
( ( NHXParser ) parser ).setGuessRootedness( true );
break;
( ( NHXParser ) parser ).setReplaceUnderscores( false );
( ( NHXParser ) parser ).setGuessRootedness( true );
break;
@@
-254,9
+258,4
@@
public class UrlTreeReader implements Runnable {
_main_frame.activateSaveAllIfNeeded();
System.gc();
}
_main_frame.activateSaveAllIfNeeded();
System.gc();
}
-
- @Override
- public void run() {
- readPhylogeniesFromWebservice();
- }
}
}