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[jalview.git]
/
src
/
jalview
/
io
/
JnetAnnotationMaker.java
diff --git
a/src/jalview/io/JnetAnnotationMaker.java
b/src/jalview/io/JnetAnnotationMaker.java
index
c5320f1
..
d5593e3
100755
(executable)
--- a/
src/jalview/io/JnetAnnotationMaker.java
+++ b/
src/jalview/io/JnetAnnotationMaker.java
@@
-68,8
+68,7
@@
public class JnetAnnotationMaker
MessageManager
.formatMessage(
"exception.number_of_residues_in_query_sequence_differ_from_prediction",
MessageManager
.formatMessage(
"exception.number_of_residues_in_query_sequence_differ_from_prediction",
- new String[]
- {
+ new String[] {
(delMap == null ? "" : MessageManager
.getString("label.mapped")),
al.getSequenceAt(firstSeq).getName(),
(delMap == null ? "" : MessageManager
.getString("label.mapped")),
al.getSequenceAt(firstSeq).getName(),
@@
-103,13
+102,13
@@
public class JnetAnnotationMaker
for (int spos = 0; spos < width; spos++)
{
int sposw = (delMap == null) ? gapmap[spos]
for (int spos = 0; spos < width; spos++)
{
int sposw = (delMap == null) ? gapmap[spos]
- : delMap[gapmap[spos]];
+ : gapmap[delMap[spos]];
if (firstsol)
{
sol[sposw] = new Annotation(0f);
}
if (preds[i].getCharAt(spos) == 'B'
if (firstsol)
{
sol[sposw] = new Annotation(0f);
}
if (preds[i].getCharAt(spos) == 'B'
- && (sol[spos].value == 0f || sol[spos].value < amnt))
+ && (sol[sposw].value == 0f || sol[sposw].value < amnt))
{
sol[sposw].value = amnt;
}
{
sol[sposw].value = amnt;
}