public void results_decoy_dataframe_with_something()
{
Sweet.lollipop = new Lollipop();
Sweet.lollipop.input_files.Add(ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Identification, "n", "s", "1", "1", "1")); //0
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("E1");
e.linked_proteoform_references = new List <Proteoform>(new List <Proteoform> {
ConstructorsForTesting.make_a_theoretical()
});
e.ptm_set = e.linked_proteoform_references.Last().ptm_set;
ProteoformFamily f = new ProteoformFamily(e);
f.construct_family();
Sweet.lollipop.decoy_proteoform_communities.Add("Decoy1", new ProteoformCommunity());
Sweet.lollipop.decoy_proteoform_communities["Decoy1"].families = new List <ProteoformFamily> {
f
};
var time_stamp = Sweet.time_stamp();
var directory = TestContext.CurrentContext.TestDirectory;
ResultsSummaryGenerator.save_all(TestContext.CurrentContext.TestDirectory, time_stamp, Sweet.lollipop.TusherAnalysis1 as IGoAnalysis, Sweet.lollipop.TusherAnalysis1 as TusherAnalysis);
Assert.IsTrue(File.Exists(Path.Combine(directory, "decoy_experimental_results_" + time_stamp + ".tsv")));
var lines = File.ReadAllLines(Path.Combine(directory, "decoy_experimental_results_" + time_stamp + ".tsv"));
Assert.AreEqual(2, lines.Length);
}
public void FillTablesAndCharts()
{
DisplayUtility.FillDataGridView(dgv_fileList, Sweet.lollipop.get_files(Sweet.lollipop.input_files, new Purpose[] { Purpose.Identification, Purpose.Quantification }).Select(c => new DisplayInputFile(c)));
DisplayInputFile.FormatInputFileTable(dgv_fileList, new Purpose[] { Purpose.Identification, Purpose.Quantification });
dgv_fileList.ReadOnly = true;
if (rb_displayIdentificationComponents.IsChecked.HasValue && (bool)rb_displayIdentificationComponents.IsChecked.Value && Sweet.lollipop.raw_experimental_components.Count > 0)
{
DisplayUtility.FillDataGridView(dgv_rawComponents, Sweet.lollipop.raw_experimental_components.Select(c => new DisplayComponent(c)));
}
if (rb_displayQuantificationComponents.IsChecked.HasValue && (bool)rb_displayQuantificationComponents.IsChecked.Value && Sweet.lollipop.raw_quantification_components.Count > 0)
{
DisplayUtility.FillDataGridView(dgv_rawComponents, Sweet.lollipop.raw_quantification_components.Select(c => new DisplayComponent(c)));
}
DisplayComponent.FormatComponentsTable(dgv_rawComponents);
rtb_raw_components_counts.Text = ResultsSummaryGenerator.raw_components_report();
NeuCodePairs pairs_form = this.MDIParent.neuCodePairs;
if (Sweet.lollipop.neucode_labeled && pairs_form.ReadyToRunTheGamut())
{
pairs_form.RunTheGamut(false);
}
}
public void results_summary_doesnt_crash_without_initializing()
{
Sweet.lollipop = new Lollipop();
Assert.True(ResultsSummaryGenerator.generate_full_report().Length > 0);
Assert.True(ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.experimental_results_dataframe(Sweet.lollipop.target_proteoform_community, new TusherAnalysis1())).Length > 0);
Assert.True(ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.topdown_results_dataframe()).Length > 0);
Assert.True(ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.experimental_intensities_dataframe()).Length > 0);
}
public void test_results_summary_with_peaks()
{
SaveState.lollipop.theoretical_database.theoretical_proteins = new Dictionary <InputFile, Protein[]>();
SaveState.lollipop.theoretical_database.expanded_proteins = new ProteinWithGoTerms[0];
ProteoformCommunity community = construct_two_families_with_potentially_colliding_theoreticals();
Assert.True(ResultsSummaryGenerator.generate_full_report().Length > 0);
}
public void biorepintensitytableLog2Fold()
{
Sweet.lollipop = new Lollipop();
Dictionary <string, List <string> > conditionsBioReps = new Dictionary <string, List <string> >
{
{ "n", new List <string> {
1.ToString(), 2.ToString(), 3.ToString()
} },
{ "s", new List <string> {
1.ToString(), 2.ToString(), 3.ToString()
} },
};
Sweet.lollipop.Log2FoldChangeAnalysis.conditionBiorepIntensitySums = conditionsBioReps.SelectMany(kv => kv.Value.Select(v => new Tuple <string, string>(kv.Key, v))).ToDictionary(t => t, t => 1d);
List <InputFile> input_files = new List <InputFile>
{
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "1", "1", "1"), //0
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "1", "2", "1"), //1
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "2", "1", "1"), //2
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "2", "2", "1"), //3
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "3", "1", "1"), //4
ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Quantification, "n", "s", "3", "2", "1"), //5
};
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("asdf");
e.quant.Log2FoldChangeValues.allIntensities = new Dictionary <Tuple <string, string>, BiorepIntensity>
{
{ new Tuple <string, string>("n", 1.ToString()), new BiorepIntensity(false, 1.ToString(), "n", 1) },
{ new Tuple <string, string>("n", 2.ToString()), new BiorepIntensity(true, 2.ToString(), "n", 1) },
{ new Tuple <string, string>("n", 3.ToString()), new BiorepIntensity(false, 3.ToString(), "n", 1) },
{ new Tuple <string, string>("s", 1.ToString()), new BiorepIntensity(false, 1.ToString(), "s", 1) },
{ new Tuple <string, string>("s", 2.ToString()), new BiorepIntensity(false, 2.ToString(), "s", 1) },
{ new Tuple <string, string>("s", 3.ToString()), new BiorepIntensity(false, 3.ToString(), "s", 1) },
};
// With imputation uses processed values
Assert.False(ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.biological_replicate_intensities(Sweet.lollipop.Log2FoldChangeAnalysis, new List <ExperimentalProteoform> {
e
}, input_files, conditionsBioReps, true, true)).Contains("NaN"));
// Without imputation uses raw values
e.biorepIntensityList = e.quant.Log2FoldChangeValues.allIntensities.Values.Where(x => !x.imputed).ToList();
Assert.True(ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.biological_replicate_intensities(Sweet.lollipop.Log2FoldChangeAnalysis, new List <ExperimentalProteoform> {
e
}, input_files, conditionsBioReps, false, true)).Contains("\t0\t"));
// Headers should be condition_biorep_fraction_techrep
string[] header = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.biological_replicate_intensities(Sweet.lollipop.Log2FoldChangeAnalysis, new List <ExperimentalProteoform> {
e
}, input_files, conditionsBioReps, false, true)).Split('\n')[0].Split('\t');
Assert.True(header[1] == "n_1" && header[2] == "n_2" && header[3] == "n_3" && header[4] == "s_1" && header[5] == "s_2" && header[6] == "s_3");
string[] line = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.biological_replicate_intensities(Sweet.lollipop.Log2FoldChangeAnalysis, new List <ExperimentalProteoform> {
e
}, input_files, conditionsBioReps, false, true)).Split('\n')[1].Split('\t');
Assert.True(line.First() == e.accession);
Assert.True(line[1] == "1" && line[2] == "0" && line[3] == "1" && line[4] == "1" && line[5] == "1" && line[6] == "1"); // all "n" condition is imputed
}
/// <summary>
/// generate report and change selected table names based on # decoy communities
/// </summary>
public void update_figures_of_merit()
{
rtb_proteoformFamilyResults.Text = ResultsSummaryGenerator.proteoform_families_report();
int selection = cmbx_tableSelector.SelectedIndex;
cmbx_tableSelector.Items.Clear();
cmbx_tableSelector.Items.AddRange(table_names);
cmbx_tableSelector.Items.AddRange(Enumerable.Range(0, Sweet.lollipop.decoy_proteoform_communities.Count).Select(i => "Decoy Community " + i).ToArray());
cmbx_tableSelector.SelectedIndex = selection < cmbx_tableSelector.Items.Count ? selection : 0;
}
private void btn_save_Click(object sender, EventArgs e)
{
if (!Directory.Exists(SaveState.lollipop.results_folder))
{
return;
}
string timestamp = SaveState.time_stamp();
ResultsSummaryGenerator.save_all(SaveState.lollipop.results_folder, timestamp);
((ProteoformSweet)MdiParent).save_all_plots(SaveState.lollipop.results_folder, timestamp);
}
public void saveall()
{
SaveState.lollipop = new Lollipop();
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("asdf");
SaveState.lollipop.qVals.Add(e.quant);
GoTermNumber g = new GoTermNumber(new GoTerm("id", "desc", Aspect.BiologicalProcess), 0, 0, 0, 0);
g.by = -1;
SaveState.lollipop.goTermNumbers.Add(g);
ResultsSummaryGenerator.save_all(TestContext.CurrentContext.TestDirectory, SaveState.time_stamp());
}
private void btn_save_Click(object sender, RoutedEventArgs e)
{
if (!Directory.Exists(Sweet.lollipop.results_folder))
{
return;
}
string timestamp = Sweet.time_stamp();
ResultsSummaryGenerator.save_all(Sweet.lollipop.results_folder, timestamp, get_go_analysis(), get_tusher_analysis());
MDIParent.save_all_plots(Sweet.lollipop.results_folder, timestamp);
using (StreamWriter file = new StreamWriter(System.IO.Path.Combine(Sweet.lollipop.results_folder, "presets_" + timestamp + ".xml")))
file.WriteLine(Sweet.save_method());
}
public void results_dataframe_with_something()
{
Sweet.lollipop = new Lollipop();
Sweet.lollipop.input_files.Add(ConstructorsForTesting.InputFile("fake.txt", Labeling.NeuCode, Purpose.Identification, "n", "s", "1", "1", "1")); //0
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("E1");
e.linked_proteoform_references = new List <Proteoform>(new List <Proteoform> {
ConstructorsForTesting.make_a_theoretical()
});
e.ptm_set = e.linked_proteoform_references.Last().ptm_set;
ProteoformFamily f = new ProteoformFamily(e);
f.construct_family();
Sweet.lollipop.target_proteoform_community.families = new List <ProteoformFamily> {
f
};
string[] lines = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.experimental_results_dataframe(Sweet.lollipop.target_proteoform_community, Sweet.lollipop.TusherAnalysis1)).Split(new string[] { Environment.NewLine }, StringSplitOptions.None);
Assert.True(lines.Count() == 3);
Assert.True(lines.Any(a => a.Contains("E1")));
TopDownProteoform td = ConstructorsForTesting.TopDownProteoform("TD1", 1000, 10);
td.linked_proteoform_references = new List <Proteoform>(new List <Proteoform> {
ConstructorsForTesting.make_a_theoretical()
});
td.ptm_set = e.linked_proteoform_references.Last().ptm_set;
ProteoformFamily f2 = new ProteoformFamily(td);
f2.construct_family();
Sweet.lollipop.target_proteoform_community.families = new List <ProteoformFamily> {
f2
};
Sweet.lollipop.topdown_proteoforms = new List <TopDownProteoform>()
{
td
};
lines = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.experimental_results_dataframe(Sweet.lollipop.target_proteoform_community, Sweet.lollipop.TusherAnalysis1)).Split(new string[] { Environment.NewLine }, StringSplitOptions.None);
Assert.True(lines.Count() == 3);
lines = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.topdown_results_dataframe()).Split(new string[] { Environment.NewLine }, StringSplitOptions.None);
Assert.True(lines.Count() == 3);
Assert.True(lines.Any(a => a.Contains("TD1")));
Sweet.lollipop.target_proteoform_community.families = new List <ProteoformFamily> {
f, f2
};
lines = ResultsSummaryGenerator.datatable_tostring(ResultsSummaryGenerator.experimental_intensities_dataframe()).Split(new string[] { Environment.NewLine }, StringSplitOptions.None);
Assert.AreEqual(lines.Count(), 4);
Assert.True(lines.Any(a => a.Contains("E1")));
Assert.True(lines.Any(a => a.Contains("TD1")));
}
public void saveall()
{
Sweet.lollipop = new Lollipop();
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("asdf");
Sweet.lollipop.qVals.Add(e.quant);
GoTermNumber g = new GoTermNumber(new GoTerm("id", "desc", Aspect.BiologicalProcess), 0, 0, 0, 0);
g.by = -1;
Sweet.lollipop.TusherAnalysis1.GoAnalysis.goTermNumbers.Add(g);
Sweet.lollipop.topdown_proteoforms = new List <TopDownProteoform>()
{
ConstructorsForTesting.TopDownProteoform("td1", 1000, 10)
};
ResultsSummaryGenerator.save_all(TestContext.CurrentContext.TestDirectory, Sweet.time_stamp(), Sweet.lollipop.TusherAnalysis1 as IGoAnalysis, Sweet.lollipop.TusherAnalysis1 as TusherAnalysis);
}
public void results_dataframe_with_something()
{
ExperimentalProteoform e = ConstructorsForTesting.ExperimentalProteoform("E1");
e.linked_proteoform_references = new List <Proteoform>(new List <Proteoform> {
ConstructorsForTesting.make_a_theoretical()
});
e.ptm_set = e.linked_proteoform_references.Last().ptm_set;
ProteoformFamily f = new ProteoformFamily(e);
f.construct_family();
SaveState.lollipop.target_proteoform_community.families = new List <ProteoformFamily> {
f
};
string[] lines = ResultsSummaryGenerator.results_dataframe().Split(new string[] { Environment.NewLine }, StringSplitOptions.None);
Assert.True(lines.Count() == 3);
Assert.True(lines.Any(a => a.Contains("E1")));
}
public void update_figures_of_merit()
{
rtb_proteoformFamilyResults.Text = ResultsSummaryGenerator.proteoform_families_report();
//change selected table names based on # decoy communities
int decoy_communities = SaveState.lollipop.decoy_proteoform_communities.Count;
for (int i = 0; i < decoy_communities; i++)
{
if (!cmbx_tableSelector.Items.Contains("Decoy Community " + i))
{
cmbx_tableSelector.Items.Add("Decoy Community " + i);
}
}
//if more items than decoy databases, remove later ones //FIX
while (cmbx_tableSelector.Items.Count - 5 - decoy_communities > 0)
{
cmbx_tableSelector.Items.RemoveAt(5 + decoy_communities);
}
}
public void experimental_intensitites_dataframe()
{
Sweet.lollipop = new Lollipop();
int id_file_index = Lollipop.file_types.ToList().IndexOf(Lollipop.file_types.Where(f => f.Contains(Purpose.Identification)).First());
Sweet.lollipop.enter_input_files(new string[] { Path.Combine(TestContext.CurrentContext.TestDirectory, "05-26-17_B7A_yeast_td_fract5_rep1.xlsx") }, Lollipop.acceptable_extensions[id_file_index], Lollipop.file_types[id_file_index], Sweet.lollipop.input_files, false);
Sweet.lollipop.enter_input_files(new string[] { Path.Combine(TestContext.CurrentContext.TestDirectory, "05-26-17_B7A_yeast_td_fract5_rep1_3columns.tsv") }, Lollipop.acceptable_extensions[id_file_index], Lollipop.file_types[id_file_index], Sweet.lollipop.input_files, false);
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).First().fraction = "5";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).First().biological_replicate = "1";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).First().technical_replicate = "1";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).First().lt_condition = "1";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).ToList()[1].fraction = "5";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).ToList()[1].biological_replicate = "1";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).ToList()[1].technical_replicate = "1";
Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).ToList()[1].lt_condition = "1";
Sweet.lollipop.process_raw_components(Sweet.lollipop.input_files.Where(f => f.purpose == Purpose.Identification).ToList(), Sweet.lollipop.raw_experimental_components, Purpose.Identification, false);
Sweet.lollipop.aggregate_proteoforms(true, null, Sweet.lollipop.raw_experimental_components, null, 1);
Sweet.lollipop.construct_target_and_decoy_families();
var dt = ResultsSummaryGenerator.experimental_intensities_dataframe();
Assert.AreEqual(111, dt.Rows.Count);
Assert.AreEqual(10, dt.Columns.Count);
}
public bool full_run()
{
clear_lists();
if (!SaveState.lollipop.theoretical_database.ready_to_make_database(Environment.CurrentDirectory))
{
if (SaveState.lollipop.get_files(SaveState.lollipop.input_files, Purpose.ProteinDatabase).Count() <= 0)
{
MessageBox.Show("Please list at least one protein database.", "Full Run");
return(false);
}
else
{
DialogResult d = MessageBox.Show("No PTM list is listed.\n\nWill now download the default PTM list from UniProt and use it for the Full Run.", "Full Run", MessageBoxButtons.OKCancel);
if (d == DialogResult.OK)
{
SaveState.lollipop.enter_uniprot_ptmlist();
if (loadDeconvolutionResults.ReadyToRunTheGamut())
{
loadDeconvolutionResults.RunTheGamut(); // updates the dgvs
}
}
else
{
return(false);
}
}
}
if (SaveState.lollipop.results_folder == "")
{
DialogResult d = MessageBox.Show("Choose a results folder for this Full Run?", "Full Run", MessageBoxButtons.YesNoCancel);
if (d == DialogResult.Yes)
{
FolderBrowserDialog folderBrowser = new FolderBrowserDialog();
DialogResult dr = folderBrowser.ShowDialog();
if (dr == DialogResult.OK)
{
string temp_folder_path = folderBrowser.SelectedPath;
SaveState.lollipop.results_folder = temp_folder_path;
loadDeconvolutionResults.InitializeParameterSet(); // updates the textbox
}
else if (dr == DialogResult.Cancel)
{
return(false);
}
}
else if (d == DialogResult.Cancel)
{
return(false);
}
}
Cursor = Cursors.WaitCursor;
foreach (ISweetForm sweet in forms)
{
if (sweet.ReadyToRunTheGamut())
{
sweet.RunTheGamut();
}
}
string timestamp = SaveState.time_stamp();
ResultsSummaryGenerator.save_all(SaveState.lollipop.results_folder, timestamp);
save_all_plots(SaveState.lollipop.results_folder, timestamp);
Cursor = Cursors.Default;
return(true);
}
public Stopwatch full_run()
{
forms[1].ClearListsTablesFigures(true); // clear forms following load deconvolution results
MessageBoxResult d3 = MessageBox.Show("Use presets for this Full Run?", "Full Run", MessageBoxButton.YesNoCancel);
if (d3 == MessageBoxResult.Yes)
{
bool?dr = methodFileOpen.ShowDialog();
if (dr == true)
{
string filepath = methodFileOpen.FileName;
MessageBoxResult d4 = MessageBox.Show("Add files at the listed paths if they still exist?", "Full Run", MessageBoxButton.YesNoCancel);
if (d4 == MessageBoxResult.Cancel)
{
return(null);
}
if (!open_method(filepath, File.ReadAllLines(filepath), d4 == MessageBoxResult.Yes))
{
return(null);
}
;
}
else if (dr == false)
{
return(null);
}
}
else if (d3 == MessageBoxResult.Cancel)
{
return(null);
}
loadResults.FillTablesAndCharts(); // updates the filelists in form
// Check that there are input files
if (Sweet.lollipop.input_files.Count == 0)
{
MessageBox.Show("Please load in deconvolution result files in order to use load and run.", "Full Run");
return(null);
}
// Check that theoretical database(s) are present
if (Sweet.lollipop.get_files(Sweet.lollipop.input_files, Purpose.ProteinDatabase).Count() <= 0)
{
MessageBox.Show("Please list at least one protein database.", "Full Run");
return(null);
}
// Option to choose a result folder
if (Sweet.lollipop.results_folder == "")
{
MessageBoxResult d2 = MessageBox.Show("Choose a results folder for this Full Run?", "Full Run", MessageBoxButton.YesNoCancel);
if (d2 == MessageBoxResult.Yes)
{
System.Windows.Forms.FolderBrowserDialog folderBrowser = new System.Windows.Forms.FolderBrowserDialog();
System.Windows.Forms.DialogResult dr = folderBrowser.ShowDialog();
if (dr == System.Windows.Forms.DialogResult.OK)
{
string temp_folder_path = folderBrowser.SelectedPath;
Sweet.lollipop.results_folder = temp_folder_path;
loadResults.InitializeParameterSet(); // updates the textbox
}
else if (dr == System.Windows.Forms.DialogResult.Cancel)
{
return(null);
}
}
else if (d2 == MessageBoxResult.Cancel)
{
return(null);
}
}
else
{
MessageBoxResult d2 = MessageBox.Show("Would you like to save results of this Full Run to " + Sweet.lollipop.results_folder + "?", "Full Run", MessageBoxButton.YesNoCancel);
if (d2 == MessageBoxResult.No)
{
Sweet.lollipop.results_folder = "";
}
else if (d2 == MessageBoxResult.Cancel)
{
return(null);
}
}
//Run the program
Mouse.OverrideCursor = Cursors.Wait;
Stopwatch stopwatch = new Stopwatch();
stopwatch.Start();
foreach (ISweetForm sweet in forms)
{
if (sweet.ReadyToRunTheGamut())
{
sweet.RunTheGamut(true);
}
}
// Save the results
resultsSummary.InitializeParameterSet();
if (Sweet.lollipop.results_folder != "")
{
string timestamp = Sweet.time_stamp();
ResultsSummaryGenerator.save_all(Sweet.lollipop.results_folder, timestamp, resultsSummary.get_go_analysis(), resultsSummary.get_tusher_analysis());
save_all_plots(Sweet.lollipop.results_folder, timestamp);
using (StreamWriter file = new StreamWriter(Path.Combine(Sweet.lollipop.results_folder, "presets_" + timestamp + ".xml")))
file.WriteLine(Sweet.save_method());
}
List <string> warning_methods = new List <string>()
{
"Warning:"
};
if (Sweet.lollipop.bottomupReader.bad_ptms.Count > 0)
{
warning_methods.Add("The following PTMs in the bottom-up file were not matched with any PTMs in the theoretical database: ");
warning_methods.Add(string.Join(", ", Sweet.lollipop.bottomupReader.bad_ptms.Distinct()));
}
if (Sweet.lollipop.topdownReader.bad_ptms.Count > 0)
{
warning_methods.Add("Top-down proteoforms with the following modifications were not matched to a modification in the theoretical PTM list: ");
warning_methods.Add(string.Join(", ", Sweet.lollipop.topdownReader.bad_ptms.Distinct()));
}
if (Sweet.lollipop.topdown_proteoforms_no_theoretical.Count() > 0)
{
warning_methods.Add("Top-down proteoforms with the following accessions were not matched to a theoretical proteoform in the theoretical database: ");
warning_methods.Add(string.Join(", ", Sweet.lollipop.topdown_proteoforms_no_theoretical.Select(t => t.accession.Split('_')[0]).Distinct()));
}
if (warning_methods.Count > 1)
{
MessageBox.Show(String.Join("\n\n", warning_methods));
}
// Program ran successfully
stopwatch.Stop();
Mouse.OverrideCursor = null;
return(stopwatch);
}
public void results_summary_doesnt_crash_without_initializing()
{
Assert.True(ResultsSummaryGenerator.generate_full_report().Length > 0);
Assert.True(ResultsSummaryGenerator.results_dataframe().Length > 0);
}
public void create_summary()
{
rtb_summary.Text = ResultsSummaryGenerator.generate_full_report();
}
