/// <summary>
/// Validate Submit Job and Fetch ResultSync() using multiple input sequences
/// </summary>
/// <param name="nodeName">xml node name</param>
void ValidateFetchResultSync(string nodeName)
{
// Read input from config file
string filepath = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.FilePathNode);
string emailId = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.EmailIDNode);
string clusterOption = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.ClusterOptionNode);
string actionAlign = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.ActionAlignNode);
// Initialize with parser and config params
ConfigParameters configparams = new ConfigParameters();
ClustalWParser clustalparser = new ClustalWParser();
configparams.UseBrowserProxy = true;
TestIClustalWServiceHandler handler =
new TestIClustalWServiceHandler(clustalparser, configparams);
ClustalWParameters parameters = new ClustalWParameters();
parameters.Values[ClustalWParameters.Email] = emailId;
parameters.Values[ClustalWParameters.ClusterOption] = clusterOption;
parameters.Values[ClustalWParameters.ActionAlign] = actionAlign;
IEnumerable <ISequence> sequence = null;
// Get the input sequences
using (FastAParser parser = new FastAParser(filepath))
{
sequence = parser.Parse();
// Submit job and validate it returned valid job id and control id
ServiceParameters svcparameters =
handler.SubmitRequest(sequence.ToList(), parameters);
Assert.IsFalse(string.IsNullOrEmpty(svcparameters.JobId));
ApplicationLog.WriteLine(string.Concat("JobId", svcparameters.JobId));
foreach (string key in svcparameters.Parameters.Keys)
{
Assert.IsFalse(string.IsNullOrEmpty(svcparameters.Parameters[key].ToString()));
ApplicationLog.WriteLine(string.Format((IFormatProvider)null, "{0}:{1}",
key, svcparameters.Parameters[key].ToString()));
}
// Get the results and validate it is not null.
ClustalWResult result = handler.FetchResultsSync(svcparameters);
Assert.IsNotNull(result);
Assert.IsNotNull(result.SequenceAlignment);
foreach (IAlignedSequence alignSeq in result.SequenceAlignment.AlignedSequences)
{
ApplicationLog.WriteLine("Aligned Sequence Sequences :");
foreach (ISequence seq in alignSeq.Sequences)
{
ApplicationLog.WriteLine(string.Concat("Sequence:", seq.ToString()));
}
}
}
ApplicationLog.WriteLine(@"ClustalWServiceHandler BVT : Submit job and Get Results is successfully completed using FetchResultSync()");
}
/// <summary>
/// Validate submit job and FetchResultAsync() using multiple input sequences
/// </summary>
/// <param name="nodeName">xml node name</param>
void ValidateFetchResultAsync(string nodeName)
{
// Read input from config file
string filepath = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.FilePathNode);
string emailId = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.EmailIDNode);
string clusterOption = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.ClusterOptionNode);
string actionAlign = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.ActionAlignNode);
ConfigParameters configparams = new ConfigParameters();
ClustalWParser clustalparser = new ClustalWParser();
configparams.UseBrowserProxy = true;
TestIClustalWServiceHandler handler =
new TestIClustalWServiceHandler(clustalparser, configparams);
ClustalWParameters parameters = new ClustalWParameters();
parameters.Values[ClustalWParameters.Email] = emailId;
parameters.Values[ClustalWParameters.ClusterOption] = clusterOption;
parameters.Values[ClustalWParameters.ActionAlign] = actionAlign;
IList <ISequence> sequence = null;
// Get input sequences
using (FastaParser parser = new FastaParser())
{
sequence = parser.Parse(filepath);
}
// Submit job and validate it returned valid job id and control id
ServiceParameters svcparameters = handler.SubmitRequest(sequence, parameters);
Assert.IsTrue(string.IsNullOrEmpty(svcparameters.JobId));
Console.WriteLine(string.Concat("JobId:", svcparameters.JobId));
foreach (string key in svcparameters.Parameters.Keys)
{
Assert.IsTrue(string.IsNullOrEmpty(svcparameters.Parameters[key].ToString()));
Console.WriteLine(string.Format((IFormatProvider)null, "{0}:{1}",
key, svcparameters.Parameters[key].ToString()));
}
// Get the results and validate it is not null.
ClustalWResult result = null;
int retrycount = 0;
ServiceRequestInformation info;
do
{
info = handler.GetRequestStatus(svcparameters);
if (info.Status == ServiceRequestStatus.Ready)
{
break;
}
Thread.Sleep(
info.Status == ServiceRequestStatus.Waiting ||
info.Status == ServiceRequestStatus.Queued ?
Constants.ClusterRetryInterval * retrycount : 0);
retrycount++;
}while (retrycount < 10);
if (info.Status == ServiceRequestStatus.Ready)
{
result = handler.FetchResultsAsync(svcparameters);
}
Assert.IsNotNull(result);
Assert.IsNotNull(result.SequenceAlignment);
foreach (IAlignedSequence alignSeq in result.SequenceAlignment.AlignedSequences)
{
Console.WriteLine("Aligned Sequence Sequences : ");
ApplicationLog.WriteLine("Aligned Sequence Sequences : ");
foreach (ISequence seq in alignSeq.Sequences)
{
Console.WriteLine(string.Concat("Sequence:", seq.ToString()));
ApplicationLog.WriteLine(string.Concat("Sequence:", seq.ToString()));
}
}
Console.WriteLine(@"ClustalWServiceHandler BVT : Submit job and Get Results is
successfully completed using FetchResultAsync()");
ApplicationLog.WriteLine(@"ClustalWServiceHandler BVT : Submit job and Get Results
is successfully completed using FetchResultAsync()");
}
