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Merge branch 'develop' into spike/JAL-4047/JAL-4048_columns_in_sequenceID
[jalview.git]
/
src
/
jalview
/
schemes
/
Consensus.java
diff --git
a/src/jalview/schemes/Consensus.java
b/src/jalview/schemes/Consensus.java
index
9d2c738
..
fe71d31
100755
(executable)
--- a/
src/jalview/schemes/Consensus.java
+++ b/
src/jalview/schemes/Consensus.java
@@
-46,7
+46,7
@@
public class Consensus
this.mask = setNums(s);
// for (int i=0; i < mask.length; i++) {
this.mask = setNums(s);
// for (int i=0; i < mask.length; i++) {
- // System.out.println(mask[i] + " " + ResidueProperties.aa[mask[i]]);
+ // jalview.bin.Console.outPrintln(mask[i] + " " + ResidueProperties.aa[mask[i]]);
// }
}
// }
}
@@
-56,7
+56,7
@@
public class Consensus
@Deprecated
public boolean isConserved(int[][] cons2, int col, int size)
{
@Deprecated
public boolean isConserved(int[][] cons2, int col, int size)
{
- System.out.println("DEPRECATED!!!!");
+ jalview.bin.Console.outPrintln("DEPRECATED!!!!");
return isConserved(cons2, col, size, true);
}
return isConserved(cons2, col, size, true);
}
@@
-75,7
+75,7
@@
public class Consensus
if (tot > ((threshold * size) / 100))
{
if (tot > ((threshold * size) / 100))
{
- // System.out.println("True conserved "+tot+" from "+threshold+" out of
+ // jalview.bin.Console.outPrintln("True conserved "+tot+" from "+threshold+" out of
// "+size+" : "+maskstr);
return true;
}
// "+size+" : "+maskstr);
return true;
}