public CsvProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessFile(JohnId.ToString(), "FocusSynthesis_InStock.csv", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public TrainOneValidModelWithFailedOptimization(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FolderId = TrainModel(JohnId.ToString(), "combined lysomotrophic.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }, { "case", "train model with failed optimization" }
}).Result;
}
public InvalidCifProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "1100110_modified.cif", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public TrainOneModelAndFailDuringTheTraining(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FolderId = TrainModel(JohnId.ToString(), "drugbank_10_records.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }, { "case", "train one model and fail during the training" }
}).Result;
}
public PdfProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessFile(JohnId.ToString(), "Abdelaziz A Full_manuscript.pdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public UploadOneModel(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
var modelBlobId = UploadModel(JohnId.ToString(), "Bernoulli_Naive_Bayes_with_isotonic_class_weights.sav",
new Dictionary <string, object>()
{
{ "parentId", JohnId },
{ "FileType", "MachineLearningModel" },
{ "ModelInfo", new Dictionary <string, object>()
{
{ "Dataset", new Dataset("title", "description") },
{ "Property", new Property("category", "name", "units", "description") },
{ "ModelName", "Some model name" },
{ "Method", "NaiveBayes" },
{ "MethodDisplayName", "Naive Bayes" },
{ "ClassName", "Soluble" },
{ "TestDatasetSize", 0.2 },
{ "KFold", 4 },
{ "Scaler", "scaler" },
{ "Fingerprints", new List <Fingerprint>()
{
new Fingerprint {
Type = "ecfp", Size = 1024, Radius = 3
}
} }
} }
}).Result;
var modelView = Models.Find(new BsonDocument("Blob._id", modelBlobId)).FirstOrDefault() as IDictionary <string, object>;
ModelId = modelView["_id"].As <Guid>();
}
public InvalidSdfProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "invalid_sdf_with_20_records_where_first_and_second_are_invalid.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public ValidRxnProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "10001.rxn", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public ValidSdfProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "drugbank_10_records.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public MsWordProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessFile(JohnId.ToString(), "Developing Standard Approaches for Curating Small Molecule Pharmaceuticals_Jan18_2013.doc", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public ValidJdxProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "2-Methyl-1-Propanol.jdx", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public TrainOneValidModelReverseEvents(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FolderId = TrainModel(JohnId.ToString(), "combined lysomotrophic.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }, { "case", "valid one model (reverse events order)" }
}).Result;
}
public TrainTwoValidModels(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FolderId = TrainModel(JohnId.ToString(), "combined lysomotrophic.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }, { "case", "two valid models" }
}).Result;
}
public InvalidMolProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "ringcount_0.mol", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public ArchiveGzProcessing(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessFile(JohnId.ToString(), "IMG_0109.gz", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public PredictPropertiesInvalidCase(OsdrTestHarness fixture) : base(fixture)
{
FolderId = PredictProperties("invalid case", "combined lysomotrophic.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public SdfProcessingWithOneValidAndOneInvalidRecords(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FileId = ProcessRecordsFile(JohnId.ToString(), "test_solubility.sdf", new Dictionary <string, object>()
{
{ "parentId", JohnId }
}).Result;
}
public OsdrTest(OsdrTestHarness fixture, ITestOutputHelper output = null, ContainerTest container = null)
{
Fixture = fixture;
Container = container;
if (output != null)
{
Log.Logger = new LoggerConfiguration()
.MinimumLevel.Debug()
.WriteTo
.TestOutput(output, LogEventLevel.Verbose)
.CreateLogger()
.ForContext <OsdrTest>();
}
}
public ImageJpgProcessing(ContainerTest containerTest, OsdrTestHarness fixture,
ITestOutputHelper output) : base(fixture, output, containerTest)
{
Container.SetTest(this);
}
public CreateNewFolder(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
FolderId = Harness.CreateFolder("new folder", JohnId, JohnId).Result;
}
public CreateNewUser(OsdrTestHarness fixture, ITestOutputHelper output) : base(fixture, output)
{
NewUserId = NewId.NextGuid();
Harness.CreateUser(NewUserId, "John Doe", "John", "Doe", "john", "*****@*****.**", null, JohnId).Wait();
}
