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Make dataset with getName, not displayid
[jalview.git]
/
src
/
jalview
/
ws
/
JPredClient.java
diff --git
a/src/jalview/ws/JPredClient.java
b/src/jalview/ws/JPredClient.java
index
8f94e97
..
4cb8aee
100755
(executable)
--- a/
src/jalview/ws/JPredClient.java
+++ b/
src/jalview/ws/JPredClient.java
@@
-137,7
+137,7
@@
public class JPredClient
" Service location failed\nfor URL :" + WsURL +
\r
"\n" +
\r
ex.getMessage());
\r
" Service location failed\nfor URL :" + WsURL +
\r
"\n" +
\r
ex.getMessage());
\r
- wsInfo.setStatus(wsInfo.STATE_STOPPED_SERVERERROR);
\r
+ wsInfo.setStatus(WebserviceInfo.STATE_STOPPED_SERVERERROR);
\r
\r
return false;
\r
}
\r
\r
return false;
\r
}
\r
@@
-172,9
+172,9
@@
public class JPredClient
this.sequence.setSeq(AlignSeq.extractGaps("-. ",
\r
msf[0].getSequence()));
\r
\r
this.sequence.setSeq(AlignSeq.extractGaps("-. ",
\r
msf[0].getSequence()));
\r
\r
- jalview.io.PileUpfile mwrite = new jalview.io.PileUpfile();
\r
this.msa = new vamsas.objects.simple.Msfalignment();
\r
this.msa = new vamsas.objects.simple.Msfalignment();
\r
- msa.setMsf(mwrite.print(msf));
\r
+ jalview.io.PileUpfile pileup = new jalview.io.PileUpfile();
\r
+ msa.setMsf(pileup.print(msf));
\r
}
\r
\r
public void run()
\r
}
\r
\r
public void run()
\r
@@
-334,7
+334,7
@@
public class JPredClient
\r
\r
\r
\r
\r
\r
- private void addFloatAnnotations(Alignment al, int[] gapmap,
\r
+ /* private void addFloatAnnotations(Alignment al, int[] gapmap,
\r
Vector values, String Symname,
\r
String Visname, float min,
\r
float max, int winLength)
\r
Vector values, String Symname,
\r
String Visname, float min,
\r
float max, int winLength)
\r
@@
-350,7
+350,7
@@
public class JPredClient
\r
al.addAnnotation(new AlignmentAnnotation(Symname, Visname,
\r
annotations, min, max, winLength));
\r
\r
al.addAnnotation(new AlignmentAnnotation(Symname, Visname,
\r
annotations, min, max, winLength));
\r
- }
\r
+ }*/
\r
\r
void parseResult()
\r
{
\r
\r
void parseResult()
\r
{
\r
@@
-518,7
+518,7
@@
public class JPredClient
i++;
\r
}
\r
\r
i++;
\r
}
\r
\r
- Hashtable scores = prediction.getScores();
\r
+ //Hashtable scores = prediction.getScores();
\r
\r
/* addFloatAnnotations(al, gapmap, (Vector)scores.get("JNETPROPH"),
\r
"JnetpropH", "Jnet Helix Propensity", 0f,1f,1);
\r
\r
/* addFloatAnnotations(al, gapmap, (Vector)scores.get("JNETPROPH"),
\r
"JnetpropH", "Jnet Helix Propensity", 0f,1f,1);
\r