package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
+import jalview.ws.params.OptionI;
+import jalview.ws.params.simple.BooleanOption;
+import jalview.ws.params.simple.Option;
import jalview.ws.rest.InputType;
import jalview.ws.rest.NoValidInputDataException;
import jalview.ws.rest.RestJob;
import java.net.URLEncoder;
import java.nio.charset.Charset;
import java.util.ArrayList;
+import java.util.Arrays;
import java.util.List;
import org.apache.http.entity.mime.content.ContentBody;
/**
* input data as a file upload rather than inline content
*/
- public boolean writeAsFile;
+ public boolean writeAsFile=false;
@Override
public ContentBody formatForInput(RestJob rj)
}
return false;
}
+ @Override
+ public List<OptionI> getOptions()
+ {
+ List<OptionI> lst = getBaseOptions();
+ lst.add(new BooleanOption("jvsuffix","Append jalview style /start-end suffix to ID", false, false, jvsuffix, null));
+ lst.add(new BooleanOption("writeasfile","Append jalview style /start-end suffix to ID", false, false, writeAsFile, null));
+
+ lst.add(new Option("format",
+ "Alignment upload format", true, "FASTA",
+ format, Arrays.asList(jalview.io.FormatAdapter.WRITEABLE_FORMATS), null));
+ lst.add(createMolTypeOption("type", "Sequence type", false, type,
+ null));
+
+ return lst;
+ }
+
}
\ No newline at end of file