org.biojava.bio.program.das.dasalignment
public class DASAlignmentCall extends Object
Constructor and Description |
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DASAlignmentCall()
Constructs a DASAlignmentCall object.
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DASAlignmentCall(String url)
Constructs a DASAlignmentCall object.
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Modifier and Type | Method and Description |
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Alignment[] |
getAlignments()
connect to a DAS alignment service and retreive alignments.
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Alignment[] |
getAlignments(String query)
connect to a DAS alignment service and retreive data.
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String |
getServerurl()
get url of alignment service.
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Alignment[] |
parseDASResponse(InputStream inStream)
parse the Response of a DAS ALignment service and return a
biojava Alignment object.
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void |
setServerurl(String s)
set url of aligmnent service.
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public DASAlignmentCall()
public DASAlignmentCall(String url)
url
- a String ...public void setServerurl(String s)
s
- a String specifying the serverurl valuegetServerurl()
public String getServerurl()
setServerurl(java.lang.String)
public Alignment[] getAlignments() throws IOException
IOException
- ...public Alignment[] getAlignments(String query) throws IOException
query
- a StringIOException
- ...public Alignment[] parseDASResponse(InputStream inStream) throws IOException, SAXException
IOException
SAXException