X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FSequenceAnnotationReport.java;h=f1ebcac17ed05eabeb937fdf410f18cc897e91fd;hb=f2a83f0360d406859b80cc798099a9d270461bb3;hp=c3b076cb20ffe774079f5e8b24e154d75b88bbea;hpb=b5a5b5fa7fe3fb77e55acf930d25d10ddc0e80e2;p=jalview.git
diff --git a/src/jalview/io/SequenceAnnotationReport.java b/src/jalview/io/SequenceAnnotationReport.java
index c3b076c..f1ebcac 100644
--- a/src/jalview/io/SequenceAnnotationReport.java
+++ b/src/jalview/io/SequenceAnnotationReport.java
@@ -78,14 +78,14 @@ public class SequenceAnnotationReport
{
return 1;
}
- int comp = s1 == null ? -1 : (s2 == null ? 1 : s1
- .compareToIgnoreCase(s2));
+ int comp = s1 == null ? -1
+ : (s2 == null ? 1 : s1.compareToIgnoreCase(s2));
if (comp == 0)
{
String a1 = ref1.getAccessionId();
String a2 = ref2.getAccessionId();
- comp = a1 == null ? -1 : (a2 == null ? 1 : a1
- .compareToIgnoreCase(a2));
+ comp = a1 == null ? -1
+ : (a2 == null ? 1 : a1.compareToIgnoreCase(a2));
}
return comp;
}
@@ -151,8 +151,7 @@ public class SequenceAnnotationReport
sb.append("
");
}
sb.append(feature.getType()).append(" ").append(feature.getBegin())
- .append(":")
- .append(feature.getEnd());
+ .append(":").append(feature.getEnd());
}
}
else
@@ -224,8 +223,8 @@ public class SequenceAnnotationReport
// check score should be shown
if (!Float.isNaN(feature.getScore()))
{
- float[][] rng = (minmax == null) ? null : minmax.get(feature
- .getType());
+ float[][] rng = (minmax == null) ? null
+ : minmax.get(feature.getType());
if (rng != null && rng[0] != null && rng[0][0] != rng[0][1])
{
sb.append(" Score=").append(String.valueOf(feature.getScore()));
@@ -269,21 +268,19 @@ public class SequenceAnnotationReport
{
for (List urllink : createLinksFrom(null, urlstring))
{
- sb.append("
"
+ sb.append("
"
+ (urllink.get(0).toLowerCase()
- .equals(urllink.get(1).toLowerCase()) ? urllink
- .get(0) : (urllink.get(0) + ":" + urllink
- .get(1)))
+ .equals(urllink.get(1).toLowerCase())
+ ? urllink.get(0)
+ : (urllink.get(0) + ":"
+ + urllink.get(1)))
+ "");
}
} catch (Exception x)
{
- System.err.println("problem when creating links from "
- + urlstring);
+ System.err.println(
+ "problem when creating links from " + urlstring);
x.printStackTrace();
}
}
@@ -478,8 +475,8 @@ public class SequenceAnnotationReport
SequenceI sequence, boolean showDbRefs, boolean showNpFeats,
Map minmax)
{
- int maxWidth = createSequenceAnnotationReport(tip, sequence,
- showDbRefs, showNpFeats, minmax, true);
+ int maxWidth = createSequenceAnnotationReport(tip, sequence, showDbRefs,
+ showNpFeats, minmax, true);
if (maxWidth > 60)
{