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JAL-2629 hmmsearch # of new sequences now only displayed when specified
author
tva
<tva@10.205.251.175>
Wed, 10 Jul 2019 14:12:58 +0000
(15:12 +0100)
committer
tva
<tva@10.205.251.175>
Wed, 10 Jul 2019 14:12:58 +0000
(15:12 +0100)
src/jalview/hmmer/HMMSearch.java
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diff --git
a/src/jalview/hmmer/HMMSearch.java
b/src/jalview/hmmer/HMMSearch.java
index
d2b469f
..
bf58a27
100644
(file)
--- a/
src/jalview/hmmer/HMMSearch.java
+++ b/
src/jalview/hmmer/HMMSearch.java
@@
-387,9
+387,12
@@
public class HMMSearch extends HmmerCommand
Desktop.addInternalFrame(alignFrame, ttl, AlignFrame.DEFAULT_WIDTH,
AlignFrame.DEFAULT_HEIGHT);
Desktop.addInternalFrame(alignFrame, ttl, AlignFrame.DEFAULT_WIDTH,
AlignFrame.DEFAULT_HEIGHT);
- int nNew = checkForNewSequences();
- JvOptionPane.showMessageDialog(af.alignPanel, nNew + " "
- + MessageManager.getString("label.new_returned"));
+ if (returnNoOfNewSeqs)
+ {
+ int nNew = checkForNewSequences();
+ JvOptionPane.showMessageDialog(af.alignPanel, nNew + " "
+ + MessageManager.getString("label.new_returned"));
+ }
}
}
@@
-417,6
+420,7
@@
public class HMMSearch extends HmmerCommand
if (resultSeq.getName().equals(aliSeq.getName()))
{
nNew--;
if (resultSeq.getName().equals(aliSeq.getName()))
{
nNew--;
+ break;
}
}
}
}
}
}
@@
-454,9
+458,12
@@
public class HMMSearch extends HmmerCommand
HmmerCommand hmmalign = new HMMAlign(frame, alignArgs);
hmmalign.run();
HmmerCommand hmmalign = new HMMAlign(frame, alignArgs);
hmmalign.run();
- int nNew = checkForNewSequences();
- JvOptionPane.showMessageDialog(frame.alignPanel,
- nNew + " " + MessageManager.getString("label.new_returned"));
+ if (returnNoOfNewSeqs)
+ {
+ int nNew = checkForNewSequences();
+ JvOptionPane.showMessageDialog(frame.alignPanel,
+ nNew + " " + MessageManager.getString("label.new_returned"));
+ }
}
/**
}
/**