X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fsurfacing%2FDomainCountsDifferenceUtil.java;h=e172659ce12bb15872e519c3460116c04ee6de5a;hb=eae9b4d545845ccc94c1465c1664086b22188ad1;hp=08f3989b6dd5b51b6f4cbfdf03e36cb899940864;hpb=87d34f343d0262cd0c009c6f1da058a5a217bc64;p=jalview.git
diff --git a/forester/java/src/org/forester/surfacing/DomainCountsDifferenceUtil.java b/forester/java/src/org/forester/surfacing/DomainCountsDifferenceUtil.java
index 08f3989..e172659 100644
--- a/forester/java/src/org/forester/surfacing/DomainCountsDifferenceUtil.java
+++ b/forester/java/src/org/forester/surfacing/DomainCountsDifferenceUtil.java
@@ -32,8 +32,6 @@ import java.io.File;
import java.io.FileWriter;
import java.io.IOException;
import java.io.Writer;
-import java.text.DecimalFormat;
-import java.text.NumberFormat;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
@@ -60,7 +58,6 @@ import org.forester.util.ForesterUtil;
*/
public final class DomainCountsDifferenceUtil {
- private final static NumberFormat FORMATTER = new DecimalFormat( "0.0E0" );
private static final COPY_CALCULATION_MODE COPY_CALC_MODE_FOR_HIGH_COPY_TARGET_SPECIES = COPY_CALCULATION_MODE.MIN;
private static final COPY_CALCULATION_MODE COPY_CALC_MODE_FOR_HIGH_COPY_BASE_SPECIES = COPY_CALCULATION_MODE.MIN;
private static final COPY_CALCULATION_MODE COPY_CALC_MODE_FOR_LOW_COPY_SPECIES = COPY_CALCULATION_MODE.MAX;
@@ -457,9 +454,6 @@ public final class DomainCountsDifferenceUtil {
private static String combinableDomaindToString( final CombinableDomains cd ) {
final StringBuilder sb = new StringBuilder();
sb.append( cd.getKeyDomainProteinsCount() );
- sb.append( "\t[" );
- sb.append( FORMATTER.format( cd.getKeyDomainConfidenceDescriptiveStatistics().median() ) );
- sb.append( "]" );
return sb.toString();
}
@@ -471,8 +465,6 @@ public final class DomainCountsDifferenceUtil {
sb.append( cd.getKeyDomainProteinsCount() );
sb.append( ", " );
sb.append( cd.getNumberOfCombinableDomains() );
- sb.append( "]| [" );
- sb.append( FORMATTER.format( cd.getKeyDomainConfidenceDescriptiveStatistics().median() ) );
sb.append( "] | " );
sb.append( cd.getCombiningDomainIdsAsStringBuilder() );
return sb.toString();
@@ -550,7 +542,7 @@ public final class DomainCountsDifferenceUtil {
int counter = 0;
int total_absense_counter = 0;
int not_total_absense_counter = 0;
- SurfacingUtil.addHtmlHead( html_writer, "Binary Domain Combination Copy Differences" );
+ SurfacingUtil.writeHtmlHead( html_writer, "Binary Domain Combination Copy Differences" );
html_writer.write( "" );
for( final BinaryDomainCombination bdc : all_bdcs ) {
if ( ( high_copy_base_values.get( bdc ) > 0 ) && ( high_copy_target_values.get( bdc ) > 0 )
@@ -674,7 +666,7 @@ public final class DomainCountsDifferenceUtil {
int counter = 0;
int total_absense_counter = 0;
int not_total_absense_counter = 0;
- SurfacingUtil.addHtmlHead( html_writer, "Domain Copy Differences" );
+ SurfacingUtil.writeHtmlHead( html_writer, "Domain Copy Differences" );
html_writer.write( "" );
for( final String domain_id : all_domains ) {
if ( ( high_copy_base_values.get( domain_id ) > 0 ) && ( high_copy_target_values.get( domain_id ) > 0 )
|