webservices/compbio/ws/server/RNAalifoldWS.java

   1 package compbio.ws.server;\r
   2 \r
   3 import java.util.List;\r
   4 \r
   5 import javax.jws.WebService;\r
   6 \r
   7 import org.apache.log4j.Logger;\r
   8 \r
   9 import compbio.data.msa.JABAService;\r
  10 import compbio.data.msa.SequenceAnnotation;\r
  11 import compbio.data.sequence.FastaSequence;\r
  12 import compbio.engine.client.ConfiguredExecutable;\r
  13 import compbio.metadata.JobSubmissionException;\r
  14 import compbio.metadata.LimitExceededException;\r
  15 import compbio.metadata.Option;\r
  16 import compbio.metadata.Preset;\r
  17 import compbio.metadata.ResultNotAvailableException;\r
  18 import compbio.metadata.UnsupportedRuntimeException;\r
  19 import compbio.metadata.WrongParameterException;\r
  20 import compbio.runner.conservation.AACon;\r
  21 import compbio.runner.structure.RNAalifold;\r
  22 \r
  23 @WebService(endpointInterface = "compbio.data.msa.SequenceAnnotation", targetNamespace = JABAService.V2_SERVICE_NAMESPACE, serviceName = "RNAalifoldWS")\r
  24 public class RNAalifoldWS extends SequenceAnnotationService<RNAalifold> \r
  25                 implements\r
  26                         SequenceAnnotation<RNAalifold> {\r
  27 \r
  28         private static Logger log = Logger.getLogger(RNAalifoldWS.class);\r
  29         \r
  30         public RNAalifoldWS() {\r
  31                 super (new RNAalifold(), log);\r
  32         }\r
  33 \r
  34         /*\r
  35          * No presets are supported, thus the result of this call will be as simple\r
  36          * call to analize without parameters\r
  37          */\r
  38         @Override\r
  39         public String presetAnalize(List<FastaSequence> sequences,\r
  40                         Preset<RNAalifold> preset) throws UnsupportedRuntimeException,\r
  41                         LimitExceededException, JobSubmissionException,\r
  42                         WrongParameterException {\r
  43 \r
  44                 return analize(sequences);\r
  45         }\r
  46 }\r
  47         \r
  48         \r