Esempio n. 1
0
        public void TestWriteAccessDb(string path, int numberConsensus, int numberProteins, int numberEvidences)
        {
            var writer        = new AccessTargetDatabaseWriter();
            var options       = new Options();
            var database      = new TargetDatabase();
            var evidenceCount = 1;

            for (var i = 1; i <= numberConsensus; i++)
            {
                var target = new ConsensusTarget {
                    Id = i
                };

                for (var k = 1; k <= numberProteins; k++)
                {
                    var protein = new ProteinInformation
                    {
                        ProteinName   = "Access_Test" + k,
                        CleavageState = clsPeptideCleavageStateCalculator.ePeptideCleavageStateConstants.Full,
                        TerminusState =
                            clsPeptideCleavageStateCalculator.ePeptideTerminusStateConstants.ProteinNTerminus
                    };
                    protein.Consensus.Add(target);

                    for (var j = 1; j <= numberEvidences; j++)
                    {
                        var evidence = new Evidence
                        {
                            AnalysisId   = j,
                            Charge       = 1,
                            Id           = evidenceCount,
                            CleanPeptide = "MIKEDEGAN" + evidenceCount,
                            Sequence     = "BIGBIRD" + evidenceCount,
                            Mz           = 405,
                            Scan         = evidenceCount++,
                            PeptideInfo  = new TargetPeptideInfo()
                        };

                        evidence.AddProtein(protein);
                        target.AddEvidence(evidence);
                    }

                    target.AddProtein(protein);
                    target.CalculateStatistics();
                }
                target.TheoreticalMonoIsotopicMass = 100.0;
                target.AverageNet   = .6;
                target.PredictedNet = .7;

                database.ConsensusTargets.Add(target);
            }

            if (File.Exists(GetTestSuiteDataPath(path)))
            {
                File.Delete(GetTestSuiteDataPath(path));
            }


            writer.Write(database, options, GetTestSuiteDataPath(path));
        }
Esempio n. 2
0
        public void TestWriteDatabase(string path, int numberOfTargets, int numberOfEvidences)
        {
            var reader        = new SqLiteTargetDatabaseWriter();
            var options       = new Options();
            var database      = new TargetDatabase();
            var proteinCount  = 1;
            var evidenceCount = 1;

            for (var i = 1; i <= numberOfTargets; i++)
            {
                var target = new ConsensusTarget {
                    Id = i
                };

                var protein = new ProteinInformation
                {
                    ProteinName   = "SO_Test" + proteinCount++,
                    CleavageState = clsPeptideCleavageStateCalculator.ePeptideCleavageStateConstants.Full,
                    TerminusState = clsPeptideCleavageStateCalculator.ePeptideTerminusStateConstants.ProteinNTerminus,
                };
                protein.Consensus.Add(target);

                for (var j = 1; j <= numberOfEvidences; j++)
                {
                    var evidence = new Evidence
                    {
                        AnalysisId   = j,
                        Charge       = 1,
                        Id           = evidenceCount,
                        CleanPeptide = "MIKEDEGAN" + evidenceCount,
                        Sequence     = "BIGBIRD" + evidenceCount,
                        Mz           = 405,
                        Scan         = evidenceCount++,
                        PeptideInfo  = new TargetPeptideInfo()
                    };

                    evidence.AddProtein(protein);
                    target.AddEvidence(evidence);
                }
                target.AddProtein(protein);
                target.CalculateStatistics();
                database.ConsensusTargets.Add(target);
            }
            reader.Write(database, options, GetTestSuiteDataPath(path));
        }