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java.lang.Objectorg.biojava.bio.program.das.dasalignment.DASAlignmentCall
public class DASAlignmentCall
takes care of the communication with a DAS Alignment service.
Constructor Summary | |
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DASAlignmentCall()
Constructs a DASAlignmentCall object. |
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DASAlignmentCall(java.lang.String url)
Constructs a DASAlignmentCall object. |
Method Summary | |
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Alignment[] |
getAlignments()
connect to a DAS alignment service and retreive alignments. |
Alignment[] |
getAlignments(java.lang.String query)
connect to a DAS alignment service and retreive data. |
java.lang.String |
getServerurl()
get url of alignment service. |
Alignment[] |
parseDASResponse(java.io.InputStream inStream)
parse the Response of a DAS ALignment service and return a biojava Alignment object. |
void |
setServerurl(java.lang.String s)
set url of aligmnent service. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public DASAlignmentCall()
public DASAlignmentCall(java.lang.String url)
url
- a String ...Method Detail |
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public void setServerurl(java.lang.String s)
s
- a String specifying the serverurl valuegetServerurl()
public java.lang.String getServerurl()
setServerurl(java.lang.String)
public Alignment[] getAlignments() throws java.io.IOException
java.io.IOException
- ...public Alignment[] getAlignments(java.lang.String query) throws java.io.IOException
query
- a String
java.io.IOException
- ...public Alignment[] parseDASResponse(java.io.InputStream inStream) throws java.io.IOException, org.xml.sax.SAXException
java.io.IOException
org.xml.sax.SAXException
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