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JAL-2079 allow prefix+<XFAMID>+suffix type URL signature
[jalview.git]
/
src
/
jalview
/
ws
/
dbsources
/
Xfam.java
diff --git
a/src/jalview/ws/dbsources/Xfam.java
b/src/jalview/ws/dbsources/Xfam.java
index
a45fbeb
..
c2ee69a
100644
(file)
--- a/
src/jalview/ws/dbsources/Xfam.java
+++ b/
src/jalview/ws/dbsources/Xfam.java
@@
-40,10
+40,12
@@
public abstract class Xfam extends DbSourceProxyImpl
protected abstract String getXFAMURL();
protected abstract String getXFAMURL();
+ @Override
public abstract String getDbVersion();
abstract String getXfamSource();
public abstract String getDbVersion();
abstract String getXfamSource();
+ @Override
public AlignmentI getSequenceRecords(String queries) throws Exception
{
// TODO: this is not a perfect implementation. We need to be able to add
public AlignmentI getSequenceRecords(String queries) throws Exception
{
// TODO: this is not a perfect implementation. We need to be able to add
@@
-52,7
+54,8
@@
public abstract class Xfam extends DbSourceProxyImpl
startQuery();
// TODO: trap HTTP 404 exceptions and return null
AlignmentI rcds = new jalview.io.FormatAdapter().readFile(getXFAMURL()
startQuery();
// TODO: trap HTTP 404 exceptions and return null
AlignmentI rcds = new jalview.io.FormatAdapter().readFile(getXFAMURL()
- + queries.trim().toUpperCase(), jalview.io.FormatAdapter.URL,
+ + queries.trim().toUpperCase() + getXFAMURLSUFFIX(),
+ jalview.io.FormatAdapter.URL,
"STH");
for (int s = 0, sNum = rcds.getHeight(); s < sNum; s++)
{
"STH");
for (int s = 0, sNum = rcds.getHeight(); s < sNum; s++)
{
@@
-70,4
+73,14
@@
public abstract class Xfam extends DbSourceProxyImpl
return rcds;
}
return rcds;
}
+ /**
+ * default suffix to append the retrieval URL for this source.
+ *
+ * @return "" for most Xfam sources
+ */
+ public String getXFAMURLSUFFIX()
+ {
+ return "";
+ }
+
}
}