private List <AnalysisMethod> GetAnalysisMethods()
{
using (var client = SamplesClient.CreateConnectedClient(Context.ServerUrl, Context.ApiToken))
{
return(client.Get(new GetAnalysisMethods()).DomainObjects);
}
}
private void Connect()
{
try
{
_client = SamplesClient.CreateConnectedClient(
serverTextBox.Text.Trim(),
apiTokenTextBox.Text.Trim());
GetConnectionInfo();
SaveConfig();
ClearTripList();
connectButton.Enabled = false;
disconnectButton.Enabled = true;
loadButton.Enabled = true;
serverTextBox.Enabled = false;
apiTokenTextBox.Enabled = false;
apiTokenLinkLabel.Enabled = false;
}
catch (Exception exception)
{
Disconnect();
Error(exception);
}
}
public ImportClient(Context context)
{
_context = context;
_httpClient = GetInitializedHttpClient();
_samplesClient = SamplesClient.CreateConnectedClient(_context.ServerUrl, _context.ApiToken);
_authHeaderValue = new AuthenticationHeaderValue("Token", _context.ApiToken);
}
public void ForEachTest()
{
_fixture = new Fixture();
_mockServiceClient = Substitute.For <IServiceClient>();
SetupMockClient();
_client = SamplesClient.CreateTestClient(_mockServiceClient);
}
private static void Validate(Context context, ValidationResult result)
{
var rules = RuleReader.ReadFromDefaultFile();
if (!rules.Any())
{
throw new ArgumentException("No rules are found.");
}
Log.Info($"Got {rules.Count} rules from the file.");
var validator = new Validator(rules);
Log.Debug($"Connecting to server with URL {context.SamplesApiBaseUrl}.");
using (var client = SamplesClient.CreateConnectedClient(context.SamplesApiBaseUrl, context.SamplesAuthToken))
{
var largeEnoughToGetAllObservationsInNamedSpecimens = 10000;
var queryFromTime = GetLastRunStartTimeAtMinuteLevel(context.LastRunStartTimeUtc);
Log.Info($"Examining observations modified from {queryFromTime}.");
foreach (var specimen in client.LazyGet <Specimen, GetSpecimens, SearchResultSpecimen>(new GetSpecimens()).DomainObjects)
{
if (result.ProcessedSpecimenNames.Contains(specimen.Name))
{
continue;
}
Log.Debug($"Examining specimen '{specimen.Name}'.");
result.ProcessedSpecimenCount++;
var observationResponse = client.Get(new GetObservations
{
SpecimenName = specimen.Name,
QualityControlTypes = new List <string> {
"NORMAL"
},
DataClassifications = new List <string> {
"LAB"
},
StartModificationTime = queryFromTime,
Limit = largeEnoughToGetAllObservationsInNamedSpecimens
});
var observations = observationResponse.DomainObjects;
result.ExaminedObservationsCount += observations.Count;
var invalidObservations = validator.GetInvalidObservations(observations);
var flaggedCount = PutBackFlaggedObservations(client, context, invalidObservations);
result.InvalidObservationsTotal += flaggedCount;
result.ProcessedSpecimenNames.Add(specimen.Name);
}
}
}
private IEnumerable <ObservationV2> LoadAll()
{
using (var client = SamplesClient.CreateConnectedClient(Context.ServerUrl, Context.ApiToken))
{
AnalysisMethods = client.Get(new GetAnalysisMethods()).DomainObjects;
Locations = client.LazyGet <SamplingLocation, GetSamplingLocations, SearchResultSamplingLocation>(
new GetSamplingLocations()).DomainObjects.ToList();
ObservedProperties = client.Get(new GetObservedProperties()).DomainObjects;
Units = client.Get(new GetUnits()).DomainObjects;
}
return(Context
.Files
.SelectMany(LoadAllObservations));
}
private ISamplesClient Connect()
{
Log.Info($"{ExeHelper.ExeNameAndVersion} connecting to {Context.ServerUrl} ...");
return(SamplesClient.CreateConnectedClient(Context.ServerUrl, Context.ApiToken));
}
