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Watch out for - symbol lin jnet files
[jalview.git]
/
src
/
jalview
/
io
/
PfamFile.java
diff --git
a/src/jalview/io/PfamFile.java
b/src/jalview/io/PfamFile.java
index
bbd441c
..
7cb381d
100755
(executable)
--- a/
src/jalview/io/PfamFile.java
+++ b/
src/jalview/io/PfamFile.java
@@
-138,9
+138,9
@@
public class PfamFile
{
\r
String tmp = printId(s[i]);
\r
\r
{
\r
String tmp = printId(s[i]);
\r
\r
- if (s[i].getSequence().length() > max)
\r
+ if (s[i].getSequence().length > max)
\r
{
\r
{
\r
- max = s[i].getSequence().length();
\r
+ max = s[i].getSequence().length;
\r
}
\r
\r
if (tmp.length() > maxid)
\r
}
\r
\r
if (tmp.length() > maxid)
\r
@@
-162,7
+162,7
@@
public class PfamFile
{
\r
out.append(new Format("%-" + maxid + "s").form( printId(s[j])+" "));
\r
\r
{
\r
out.append(new Format("%-" + maxid + "s").form( printId(s[j])+" "));
\r
\r
- out.append(s[j].getSequence() + "\n");
\r
+ out.append(s[j].getSequenceAsString() + "\n");
\r
j++;
\r
}
\r
\r
j++;
\r
}
\r
\r